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Opened 3 years ago
Closed 3 years ago
#6954 closed defect (fixed)
PDB assembly chain IDs
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Command Line | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Select function problem. I used ChimeraX to open 6rbn-assembly1.cif which was downloaded from PDB database. Here is the link https://files.rcsb.org/download/6RBN-assembly1.cif. Some chain idd in the cif file are like A-4. But when I tried to select the chain, the log file showed "Nothing selected".
select #0/A-4 Nothing selected
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open /Users/bks523/Desktop/AFP_All_Align.cxs format session
Opened cryosparc_P15_J790__localfilter_flipped_formodpot.mrc as #1, grid size
600,600,600, pixel 1.47, shown at level 0.826, step 1, values float32
Opened cryosparc_P60_J513__localfilter.mrc as #2, grid size 540,540,540, pixel
0.832, shown at level 0.485, step 1, values float32
Opened emdb 4783 as #5, grid size 240,240,896, pixel 1.35,1.35,1.35, shown at
level 0.0526, step 1, values float32
Opened 6rao-assembly1.cif map 5 as #7, grid size 150,147,176, pixel 1.67,
shown at level 0.101, step 1, values float32
Opened 6rbn-assembly1.cif map 5 as #4, grid size 123,123,142, pixel 1.67,
shown at level 0.104, step 1, values float32
Log from Tue May 24 17:12:11 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/bks523/Desktop/Afp13/Nterm/cryosparc_P15_J790__localfilter_flipped_formodpot.mrc
> format mrc
Opened cryosparc_P15_J790__localfilter_flipped_formodpot.mrc as #1, grid size
600,600,600, pixel 1.47, shown at level 0.000379, step 4, values float32
> volume #1 step 1
> volume #1 level 0.2433
> open /Users/bks523/Desktop/Afp13/Cterm/cryosparc_P60_J513__localfilter.mrc
Opened cryosparc_P60_J513__localfilter.mrc as #2, grid size 540,540,540, pixel
0.832, shown at level 0.000427, step 4, values float32
> volume #2 step 1
> open /Users/bks523/Desktop/Afp13/Cterm/Namdinator_fit_AF2_ranked1.pdb
Chain information for Namdinator_fit_AF2_ranked1.pdb #3
---
Chain | Description
A B C | No description available
> hide #3 models
> show #3 models
> open /Users/bks523/Desktop/Afp13/Nterm/Namdinator_Nterm.pdb
Chain information for Namdinator_Nterm.pdb #4
---
Chain | Description
A B C | No description available
> transparency 50
> volume #1 level 0.1219
> hide #!2 models
> show #!2 models
> hide #4 models
> show #4 models
> hide #4 models
> show #4 models
> hide #4 models
> show #4 models
> volume #1 level 0.8334
> volume #1 level -0.2773
> volume #1 level 0.0698
> volume #1 level 0.0003793
> volume #1 level 0.2086
> volume #1 level 0.1219
> ui mousemode right "translate selected models"
> select #3
12762 atoms, 12849 bonds, 1908 residues, 1 model selected
> select #2
2 models selected
> view matrix models #2,1,0,0,280.17,0,1,0,229.68,0,0,1,98.989
> view matrix models #2,1,0,0,317.3,0,1,0,222.89,0,0,1,96.488
> view matrix models #2,1,0,0,275.44,0,1,0,135.79,0,0,1,71.427
> view matrix models #2,1,0,0,338.41,0,1,0,195.6,0,0,1,84.849
> view matrix models #2,1,0,0,341.24,0,1,0,209.93,0,0,1,91.492
> view matrix models #2,1,0,0,288.52,0,1,0,165.25,0,0,1,231.03
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.26769,0.89359,0.36032,289.58,0.92394,0.13201,0.35905,80.862,0.27328,0.42903,-0.86096,470.69
> view matrix models
> #2,0.90451,0.38777,0.17748,183.09,0.39148,-0.92006,0.015076,513.95,0.16914,0.055845,-0.98401,605.63
> view matrix models
> #2,0.75446,0.61038,-0.2413,255.35,0.65633,-0.69981,0.28194,347.33,0.0032264,-0.37108,-0.92859,728.42
> view matrix models
> #2,0.77527,0.63065,-0.035256,201.93,0.60602,-0.72693,0.32296,355.96,0.17805,-0.27175,-0.94575,670.39
> view matrix models
> #2,0.9082,0.29231,0.29954,177.95,0.23729,-0.94917,0.2068,513.91,0.34476,-0.11674,-0.9314,594.68
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.9082,0.29231,0.29954,186.33,0.23729,-0.94917,0.2068,515.09,0.34476,-0.11674,-0.9314,593.2
> ui tool show "Fit in Map"
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5463, correlation about mean = 0.3861, overlap = 6.643e+04
steps = 444, shift = 11.8, angle = 15.3 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85661724 0.49301597 0.15212549 188.92318520
0.42500981 -0.84142779 0.33371537 415.48212744
0.29252962 -0.22121152 -0.93031817 628.66905657
Axis -0.96268090 -0.24357150 -0.11797633
Axis point 0.00000000 228.69281259 277.64006434
Rotation angle (degrees) 163.24860761
Shift along axis -357.24041614
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5464, correlation about mean = 0.3863, overlap = 6.647e+04
steps = 48, shift = 0.0248, angle = 0.388 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85332391 0.49875482 0.15192738 188.41669072
0.43081830 -0.83862508 0.33332202 413.64736604
0.29365608 -0.21897855 -0.93049154 627.95294840
Axis -0.96181332 -0.24681587 -0.11830922
Axis point 0.00000000 227.29395780 277.58319046
Rotation angle (degrees) 163.31473220
Shift along axis -357.60903944
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5464, correlation about mean = 0.3864, overlap = 6.649e+04
steps = 48, shift = 0.0124, angle = 0.271 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85100179 0.50274302 0.15180714 188.06723859
0.43484840 -0.83664604 0.33306197 412.36000602
0.29445343 -0.21742324 -0.93060428 627.44652260
Axis -0.96120117 -0.24907440 -0.11855066
Axis point 0.00000000 226.31617934 277.53757786
Rotation angle (degrees) 163.36027363
Shift along axis -357.86297045
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5464, correlation about mean = 0.3865, overlap = 6.649e+04
steps = 40, shift = 0.0265, angle = 0.164 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.84954958 0.50517929 0.15185319 187.83096549
0.43720814 -0.83538372 0.33314124 411.51570866
0.29515174 -0.21662855 -0.93056839 627.08364522
Axis -0.96081688 -0.25043876 -0.11879122
Axis point 0.00000000 225.72194703 277.46019131
Rotation angle (degrees) 163.37568740
Shift along axis -358.02267871
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5463, correlation about mean = 0.3865, overlap = 6.65e+04
steps = 28, shift = 0.0269, angle = 0.0875 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.84878393 0.50645503 0.15188528 187.71673671
0.43848905 -0.83475444 0.33303511 411.12232523
0.29545422 -0.21607481 -0.93060114 626.91870249
Axis -0.96061512 -0.25116008 -0.11889997
Axis point 0.00000000 225.41153050 277.44326944
Rotation angle (degrees) 163.39263116
Shift along axis -358.12166775
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5463, correlation about mean = 0.3864, overlap = 6.65e+04
steps = 44, shift = 0.0222, angle = 0.0936 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.84797726 0.50783027 0.15179913 187.59062721
0.43988915 -0.83405251 0.33294736 410.66662953
0.29568919 -0.21555700 -0.93064660 626.74160734
Axis -0.96040224 -0.25194392 -0.11896133
Axis point 0.00000000 225.07149700 277.42812047
Rotation angle (degrees) 163.40769254
Shift along axis -358.18543467
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5463, correlation about mean = 0.3865, overlap = 6.65e+04
steps = 44, shift = 0.0108, angle = 0.079 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.84725542 0.50898690 0.15195589 187.45935781
0.44097025 -0.83345514 0.33301316 410.26842999
0.29614775 -0.21513917 -0.93059747 626.52959886
Axis -0.96021110 -0.25258422 -0.11914633
Axis point 0.00000000 224.78860815 277.36565112
Rotation angle (degrees) 163.41525299
Shift along axis -358.27658857
> view matrix models
> #2,0.84726,0.50899,0.15196,171.89,0.44097,-0.83346,0.33301,390.19,0.29615,-0.21514,-0.9306,698.56
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7142, correlation about mean = 0.5541, overlap = 8.938e+04
steps = 156, shift = 14, angle = 2.63 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85336820 0.49143483 0.17393827 174.09712869
0.40869294 -0.83781259 0.36199467 389.34795637
0.32362446 -0.23782740 -0.91580857 681.66571599
Axis -0.96166994 -0.23998569 -0.13265665
Axis point 0.00000000 225.75478047 303.46151390
Rotation angle (degrees) 161.82835016
Shift along axis -351.28940236
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7142, correlation about mean = 0.5541, overlap = 8.938e+04
steps = 80, shift = 0.0228, angle = 0.15 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85463693 0.48920168 0.17400414 174.30023779
0.40648264 -0.83888565 0.36199825 390.08744145
0.32305972 -0.23864741 -0.91579465 681.99665938
Axis -0.96200606 -0.23873040 -0.13248446
Axis point 0.00000000 226.29292035 303.51349001
Rotation angle (degrees) 161.80910676
Shift along axis -351.15757531
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7143, correlation about mean = 0.5541, overlap = 8.939e+04
steps = 44, shift = 0.0258, angle = 0.0423 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85497644 0.48858942 0.17405649 174.35345713
0.40583514 -0.83915854 0.36209223 390.27298107
0.32297542 -0.23894208 -0.91574754 682.04721506
Axis -0.96209542 -0.23837944 -0.13246750
Axis point 0.00000000 226.44386948 303.49894274
Rotation angle (degrees) 161.79867345
Shift along axis -351.12680962
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7143, correlation about mean = 0.5541, overlap = 8.938e+04
steps = 124, shift = 0.028, angle = 0.0732 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85562014 0.48752738 0.17387132 174.49129329
0.40483098 -0.83963202 0.36211869 390.59162203
0.32253070 -0.23944755 -0.91577225 682.29095711
Axis -0.96226553 -0.23779559 -0.13228117
Axis point 0.00000000 226.69963536 303.57053836
Rotation angle (degrees) 161.78533285
Shift along axis -351.04217131
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7142, correlation about mean = 0.5541, overlap = 8.937e+04
steps = 140, shift = 0.00481, angle = 0.0331 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85590181 0.48702428 0.17389493 174.53667319
0.40435305 -0.83988900 0.36205673 390.76836263
0.32238286 -0.23957006 -0.91579227 682.35071803
Axis -0.96234054 -0.23751594 -0.13223792
Axis point 0.00000000 226.81317224 303.58000720
Rotation angle (degrees) 161.78490490
Shift along axis -351.01007083
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7143, correlation about mean = 0.5541, overlap = 8.939e+04
steps = 76, shift = 0.0165, angle = 0.00355 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85590845 0.48700071 0.17392825 174.53515878
0.40433839 -0.83991690 0.36200838 390.80281053
0.32238361 -0.23952016 -0.91580506 682.33661817
Axis -0.96234264 -0.23750316 -0.13224555
Axis point 0.00000000 226.82098713 303.57377774
Rotation angle (degrees) 161.78802545
Shift along axis -351.01551232
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.80706,-0.45076,0.3814,355.48,-0.58784,-0.67424,0.44705,555.91,0.055644,-0.58499,-0.80913,797.98
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.6578, correlation about mean = 0.4707, overlap = 7.934e+04
steps = 2000, shift = 3.72, angle = 45.1 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.96099618 0.20325810 0.18754332 212.21457975
0.12321622 -0.92177177 0.36763375 470.34654330
0.24759668 -0.33018624 -0.91086384 718.88035649
Axis -0.98987450 -0.08518713 -0.11354133
Axis point 0.00000000 288.69467366 306.60967552
Rotation angle (degrees) 159.36098171
Shift along axis -331.75590290
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7141, correlation about mean = 0.5538, overlap = 8.937e+04
steps = 368, shift = 0.931, angle = 17.3 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.86005310 0.47962946 0.17396624 175.24974084
0.39705534 -0.84333223 0.36212955 393.17629474
0.32039933 -0.24237642 -0.91574993 683.41709770
Axis -0.96343889 -0.23337957 -0.13160354
Axis point 0.00000000 228.58522822 303.73530096
Rotation angle (degrees) 161.71625759
Shift along axis -350.54183815
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7142, correlation about mean = 0.5539, overlap = 8.938e+04
steps = 44, shift = 0.0188, angle = 0.119 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85910425 0.48143608 0.17366402 175.13244689
0.39887611 -0.84243682 0.36221273 392.55164817
0.32068324 -0.24190807 -0.91577440 683.24674006
Axis -0.96318701 -0.23440180 -0.13163045
Axis point 0.00000000 228.16542688 303.73998341
Rotation angle (degrees) 161.72337201
Shift along axis -350.63618762
> view matrix models
> #2,0.83386,0.47572,0.27994,159.3,0.38647,-0.86528,0.31927,409.75,0.39411,-0.15803,-0.90537,645.46
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.83386,0.47572,0.27994,154.86,0.38647,-0.86528,0.31927,404.76,0.39411,-0.15803,-0.90537,656.99
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7143, correlation about mean = 0.5541, overlap = 8.938e+04
steps = 156, shift = 13.6, angle = 6.61 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85487882 0.48889057 0.17369002 174.39785406
0.40624656 -0.83898639 0.36202979 390.15305895
0.32271651 -0.23893062 -0.91584180 682.13857455
Axis -0.96206960 -0.23857455 -0.13230371
Axis point 0.00000000 226.36875700 303.57339614
Rotation angle (degrees) 161.80048413
Shift along axis -351.11292733
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7142, correlation about mean = 0.5541, overlap = 8.938e+04
steps = 84, shift = 0.0263, angle = 0.0568 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.85530929 0.48805432 0.17392241 174.42180662
0.40535813 -0.83940597 0.36205303 390.44257742
0.32269306 -0.23916646 -0.91578851 682.19974700
Axis -0.96218369 -0.23809057 -0.13234588
Axis point 0.00000000 226.57241017 303.55552240
Rotation angle (degrees) 161.79459770
Shift along axis -351.07283745
> view matrix models
> #2,0.85531,0.48805,0.17392,184.2,0.40536,-0.83941,0.36205,414.49,0.32269,-0.23917,-0.91579,621.4
> view matrix models
> #2,0.85531,0.48805,0.17392,196.27,0.40536,-0.83941,0.36205,433.43,0.32269,-0.23917,-0.91579,527.81
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.84194,-0.41378,-0.34631,892.47,0.41469,-0.90684,0.075338,508.21,-0.34522,-0.080182,0.93509,243.81
> ui mousemode right "move picked models"
> view matrix models
> #2,-0.84194,-0.41378,-0.34631,903.6,0.41469,-0.90684,0.075338,549.79,-0.34522,-0.080182,0.93509,199.23
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.77204,-0.57351,-0.27394,909.05,0.56851,-0.81585,0.10581,488.15,-0.28418,-0.074042,0.95591,179.76
> view matrix models
> #2,-0.76673,-0.58303,-0.2687,908.92,0.57773,-0.80916,0.10719,484.27,-0.27992,-0.073052,0.95724,178.3
> view matrix models
> #2,0.73566,-0.67727,0.010358,535.69,0.65176,0.70363,-0.28304,205.32,0.1844,0.21497,0.95905,8.4907
> view matrix models
> #2,0.87935,-0.44887,-0.15892,487.68,0.3959,0.87463,-0.2798,222.57,0.26459,0.18313,0.94681,0.51678
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5213, correlation about mean = 0.2667, overlap = 7.433e+04
steps = 280, shift = 6.29, angle = 11.1 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.94135808 -0.28483162 -0.18087541 443.81710036
0.21652893 0.92109575 -0.32357046 257.75225566
0.25876667 0.26543091 0.92875521 -17.99863023
Axis 0.66202073 -0.49414516 0.56351496
Axis point 0.00000000 635.91326224 880.22295548
Rotation angle (degrees) 26.41381546
Shift along axis 156.30659672
> view matrix models
> #2,0.93443,-0.24502,-0.25846,452.88,0.17638,0.94886,-0.26185,247.13,0.3094,0.19909,0.92986,-14.35
> view matrix models
> #2,-0.00045865,-0.98961,-0.1438,807.09,0.98171,0.026928,-0.18845,262.72,0.19037,-0.14125,0.9715,81.123
> view matrix models
> #2,-0.90086,-0.36863,-0.22926,884.12,0.39081,-0.9186,-0.058659,582.96,-0.18897,-0.14244,0.9716,165.96
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5292, correlation about mean = 0.2843, overlap = 7.309e+04
steps = 136, shift = 8.14, angle = 14.1 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.92423773 -0.33416160 -0.18471773 877.11905463
0.37668385 -0.87707073 -0.29808760 622.20120807
-0.06240109 -0.34508399 0.93649514 182.80750577
Axis -0.06501796 -0.16922104 0.98343119
Axis point 385.15730312 410.34065876 0.00000000
Rotation angle (degrees) 158.81313229
Shift along axis 17.46057814
> view matrix models
> #2,-0.89527,0.43551,0.093943,634.89,-0.44514,-0.88319,-0.14771,774.63,0.01864,-0.17406,0.98456,115.32
> view matrix models
> #2,0.10076,0.99482,-0.013273,307.83,-0.98349,0.097583,-0.1524,671.32,-0.15032,0.028411,0.98823,105.89
> view matrix models
> #2,0.26704,0.95679,-0.11511,301.28,-0.95847,0.25128,-0.13491,626.84,-0.10016,0.14636,0.98415,68.6
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.5382, correlation about mean = 0.2994, overlap = 7.403e+04
steps = 364, shift = 12, angle = 11.5 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.24241448 0.95122512 -0.19080353 326.82386943
-0.93549031 0.17706789 -0.30578562 681.96910636
-0.25708579 0.25262172 0.93278570 92.86180662
Axis 0.28363801 0.03366748 -0.95834022
Axis point 601.71783342 143.59642044 0.00000000
Rotation angle (degrees) 79.85534132
Shift along axis 26.66664788
> view matrix models
> #2,-0.80849,0.2036,0.55217,572.98,0.054927,0.96026,-0.27365,275.09,-0.58594,-0.19092,-0.78754,636.24
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.4941, correlation about mean = 0.2769, overlap = 6.138e+04
steps = 1316, shift = 19.7, angle = 39.4 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.93518439 0.22533823 0.27322671 655.04566304
0.29987591 0.91426880 0.27237291 111.84264652
-0.18842663 0.33665301 -0.92258341 467.66976724
Axis 0.13617820 0.97801852 0.15790903
Axis point 345.72249135 0.00000000 186.99125038
Rotation angle (degrees) 166.34856130
Shift along axis 272.43640117
> view matrix models
> #2,-0.88362,0.16491,0.4382,622.02,0.17715,0.9841,-0.013133,184.41,-0.4334,0.066021,-0.89878,579.1
> view matrix models
> #2,-0.88403,0.12652,0.44998,628.37,0.080591,0.98951,-0.1199,227.57,-0.46043,-0.069728,-0.88495,613.22
> ui mousemode right "translate selected models"
> view matrix models
> #2,-0.88403,0.12652,0.44998,524.65,0.080591,0.98951,-0.1199,263.79,-0.46043,-0.069728,-0.88495,759.53
> view matrix models
> #2,-0.88403,0.12652,0.44998,601.97,0.080591,0.98951,-0.1199,210.42,-0.46043,-0.069728,-0.88495,847.7
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 60, shift = 12.7, angle = 5.48 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.84426177 0.11168474 0.52416465 589.29134250
0.08565619 0.99359205 -0.07374176 209.80293814
-0.52904167 -0.01735940 -0.84841827 846.03740431
Axis 0.05344120 0.99826619 -0.02467078
Axis point 410.66628801 0.00000000 343.10787153
Rotation angle (degrees) 148.16210622
Shift along axis 220.05921189
> view matrix models
> #2,-0.84426,0.11168,0.52416,623.75,0.085656,0.99359,-0.073742,157.88,-0.52904,-0.017359,-0.84842,840.39
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.85794,-0.45662,0.23544,818.66,-0.50161,0.84355,-0.19186,348.46,-0.111,-0.28271,-0.95276,830.23
> view matrix models
> #2,-0.5981,-0.77388,0.2083,839.11,-0.64853,0.62006,0.44151,296.63,-0.47083,0.12898,-0.87275,799.14
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7067, correlation about mean = 0.5409, overlap = 8.798e+04
steps = 1016, shift = 68.8, angle = 37 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.03650445 -0.98266480 0.18176168 704.26396850
-0.92682853 0.10130733 0.36156010 478.45065420
-0.37370618 -0.15526336 -0.91445994 819.78348015
Axis -0.67934392 0.73014045 0.07339457
Axis point 686.34016949 0.00000000 296.87394416
Rotation angle (degrees) 157.64251371
Shift along axis -68.93361624
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7071, correlation about mean = 0.5417, overlap = 8.8e+04
steps = 124, shift = 0.0251, angle = 0.551 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02707216 -0.98296668 0.18177900 702.19643308
-0.92779591 0.09239813 0.36146554 480.69893730
-0.37210462 -0.15886816 -0.91449388 820.25801347
Axis -0.68289141 0.72692268 0.07240670
Axis point 689.27144883 0.00000000 297.15223239
Rotation angle (degrees) 157.60570233
Shift along axis -70.70077853
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7071, correlation about mean = 0.5418, overlap = 8.802e+04
steps = 64, shift = 0.0269, angle = 0.0872 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02564810 -0.98301817 0.18170703 701.90486007
-0.92802781 0.09098502 0.36122861 481.14016355
-0.37162691 -0.15936435 -0.91460180 820.27692115
Axis -0.68344278 0.72642566 0.07219223
Axis point 689.71272846 0.00000000 297.23435794
Rotation angle (degrees) 157.61299481
Shift along axis -70.98162791
> select clear
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 429354 points
correlation = 0.7072, correlation about mean = 0.5418, overlap = 8.802e+04
steps = 40, shift = 0.0148, angle = 0.0264 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02521689 -0.98305674 0.18155865 701.85835359
-0.92805969 0.09052681 0.36126183 481.24420009
-0.37157681 -0.15938737 -0.91461814 820.26717568
Axis -0.68361106 0.72626544 0.07221099
Axis point 689.85168751 0.00000000 297.22126539
Rotation angle (degrees) 157.61625551
Shift along axis -71.05479737
> hide #!2 models
> show #!2 models
> volume #1 level 0.05776
> hide #4 models
> show #4 models
> hide #4 models
> hide #3 models
> show #3 models
> hide #!2 models
> show #!2 models
> volume #1 level 0.7372
> volume #2 level 0.2229
> volume #1 level 0.8251
> volume #2 level 0.3472
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2451, overlap = 7.307e+04
steps = 44, shift = 0.0856, angle = 0.134 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02354586 -0.98284003 0.18295099 701.08176964
-0.92838970 0.08938363 0.36069811 481.71580519
-0.37086137 -0.16135687 -0.91456318 820.55576217
Axis -0.68418694 0.72580705 0.07136069
Axis point 690.35186015 0.00000000 297.52582647
Rotation angle (degrees) 157.57245138
Shift along axis -71.48283891
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2449, overlap = 7.306e+04
steps = 80, shift = 0.0113, angle = 0.108 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02169967 -0.98286755 0.18303142 700.65028089
-0.92855346 0.08767021 0.36069712 482.13368575
-0.37056390 -0.16212745 -0.91454747 820.66674501
Axis -0.68487274 0.72518081 0.07114861
Axis point 690.92873363 0.00000000 297.58693173
Rotation angle (degrees) 157.56130493
Shift along axis -71.83288311
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.245, overlap = 7.307e+04
steps = 64, shift = 0.0123, angle = 0.0535 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02079669 -0.98290787 0.18291969 700.48972484
-0.92864947 0.08676915 0.36066782 482.36856083
-0.37037502 -0.16236758 -0.91458139 820.68599987
Axis -0.68521846 0.72486060 0.07108287
Axis point 691.21612969 0.00000000 297.60808757
Rotation angle (degrees) 157.56370657
Shift along axis -72.00180654
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2449, overlap = 7.307e+04
steps = 76, shift = 0.0092, angle = 0.0344 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02021673 -0.98290757 0.18298629 700.33711196
-0.92871268 0.08624029 0.36063190 482.50832139
-0.37024862 -0.16265089 -0.91458223 820.72116315
Axis -0.68543329 0.72466672 0.07098835
Axis point 691.39311915 0.00000000 297.63837568
Rotation angle (degrees) 157.55993479
Shift along axis -72.11500600
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2454, overlap = 7.307e+04
steps = 64, shift = 0.0245, angle = 0.0232 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01994476 -0.98288556 0.18313433 700.22948898
-0.92881324 0.08600385 0.36042932 482.64477234
-0.37001103 -0.16290892 -0.91463245 820.73246173
Axis -0.68553786 0.72458319 0.07083109
Axis point 691.47297719 0.00000000 297.70346556
Rotation angle (degrees) 157.56103731
Shift along axis -72.18416177
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2456, overlap = 7.308e+04
steps = 44, shift = 0.0252, angle = 0.0189 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01976271 -0.98293924 0.18286575 700.27297836
-0.92880755 0.08574282 0.36050618 482.68329603
-0.37003510 -0.16272251 -0.91465590 820.68494562
Axis -0.68561714 0.72449831 0.07093192
Axis point 691.53428636 0.00000000 297.65896843
Rotation angle (degrees) 157.56872578
Shift along axis -72.20316788
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2449, overlap = 7.307e+04
steps = 40, shift = 0.0315, angle = 0.014 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01966991 -0.98290645 0.18305193 700.20392131
-0.92876189 0.08574708 0.36062278 482.63602254
-0.37015463 -0.16291823 -0.91457269 820.76763744
Axis -0.68563421 0.72448447 0.07090822
Axis point 691.57080857 0.00000000 297.66467470
Rotation angle (degrees) 157.55519538
Shift along axis -72.22228540
> ui mousemode right "translate selected models"
> select #2
2 models selected
> view matrix models
> #2,-0.01967,-0.98291,0.18305,696.84,-0.92876,0.085747,0.36062,481.74,-0.37015,-0.16292,-0.91457,826.1
> view matrix models
> #2,-0.01967,-0.98291,0.18305,711.32,-0.92876,0.085747,0.36062,436.14,-0.37015,-0.16292,-0.91457,803.22
> view matrix models
> #2,-0.01967,-0.98291,0.18305,713.84,-0.92876,0.085747,0.36062,480.08,-0.37015,-0.16292,-0.91457,819.42
> volume #1 level 1.151
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2451, overlap = 7.307e+04
steps = 120, shift = 14, angle = 0.0233 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01947946 -0.98286000 0.18332149 700.08323277
-0.92884941 0.08563473 0.36042402 482.73146713
-0.36994504 -0.16325719 -0.91459705 820.79286729
Axis -0.68570099 0.72443960 0.07072073
Axis point 691.62214330 0.00000000 297.73531351
Rotation angle (degrees) 157.55116320
Shift along axis -72.29090106
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2454, overlap = 7.308e+04
steps = 44, shift = 0.00946, angle = 0.0196 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01953434 -0.98292044 0.18299130 700.18181505
-0.92884024 0.08556744 0.36046362 482.74210393
-0.36996516 -0.16292827 -0.91464756 820.73512091
Axis -0.68569753 0.72443018 0.07085066
Axis point 691.60574551 0.00000000 297.69660480
Rotation angle (degrees) 157.56412176
Shift along axis -72.25036816
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2453, overlap = 7.307e+04
steps = 60, shift = 0.0272, angle = 0.0124 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01952370 -0.98295176 0.18282415 700.23835534
-0.92879215 0.08551765 0.36059933 482.70239495
-0.37008644 -0.16276540 -0.91462749 820.70751963
Axis -0.68570347 0.72441395 0.07095899
Axis point 691.61467005 0.00000000 297.64358713
Rotation angle (degrees) 157.56555446
Shift along axis -72.24294939
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2454, overlap = 7.308e+04
steps = 60, shift = 0.0218, angle = 0.0119 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01955238 -0.98291786 0.18300325 700.18434108
-0.92882498 0.08559490 0.36049642 482.72207140
-0.37000252 -0.16292942 -0.91463224 820.73544503
Axis -0.68568821 0.72443792 0.07086171
Axis point 691.60049361 0.00000000 297.68697715
Rotation angle (degrees) 157.56226529
Shift along axis -72.24725553
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2457, overlap = 7.308e+04
steps = 64, shift = 0.0126, angle = 0.00958 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01966950 -0.98293700 0.18288786 700.24326157
-0.92881506 0.08566312 0.36050578 482.70936347
-0.37002121 -0.16277803 -0.91465164 820.70031873
Axis -0.68565068 0.72446821 0.07091514
Axis point 691.56606821 0.00000000 297.66632370
Rotation angle (degrees) 157.56739103
Shift along axis -72.21460617
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2451, overlap = 7.307e+04
steps = 84, shift = 0.0254, angle = 0.0091 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01955558 -0.98295184 0.18282027 700.24303883
-0.92878566 0.08554798 0.36060884 482.68781539
-0.37010103 -0.16274893 -0.91462452 820.71859387
Axis -0.68569125 0.72442470 0.07096728
Axis point 691.60304787 0.00000000 297.64684252
Rotation angle (degrees) 157.56544727
Shift along axis -72.23538537
> volume #1 level 1.428
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2453, overlap = 7.307e+04
steps = 48, shift = 0.0273, angle = 0.0231 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01956942 -0.98289473 0.18312562 700.15379213
-0.92887811 0.08563181 0.36035072 482.75958420
-0.36986820 -0.16304953 -0.91466516 820.73851248
Axis -0.68568306 0.72445227 0.07076473
Axis point 691.58909076 0.00000000 297.73128633
Rotation angle (degrees) 157.56324474
Shift along axis -72.26798005
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2446, overlap = 7.306e+04
steps = 64, shift = 0.036, angle = 0.026 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01952906 -0.98292443 0.18297041 700.19360163
-0.92872329 0.08560646 0.36075556 482.61805222
-0.37025891 -0.16288366 -0.91453663 820.77356321
Axis -0.68568394 0.72443095 0.07097416
Axis point 691.61459901 0.00000000 297.63017269
Rotation angle (degrees) 157.55247275
Shift along axis -72.23434620
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2449, overlap = 7.307e+04
steps = 76, shift = 0.0135, angle = 0.00913 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01949595 -0.98292481 0.18297192 700.18192564
-0.92878157 0.08555136 0.36061857 482.68184586
-0.37011444 -0.16291035 -0.91459036 820.75147051
Axis -0.68570409 0.72441764 0.07091536
Axis point 691.61911490 0.00000000 297.65997542
Rotation angle (degrees) 157.55815421
Shift along axis -72.25048805
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.245, overlap = 7.307e+04
steps = 64, shift = 0.0183, angle = 0.015 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01944162 -0.98296054 0.18278565 700.22753565
-0.92872054 0.08546059 0.36079724 482.64288639
-0.37027042 -0.16274230 -0.91455714 820.73468451
Axis -0.68572500 0.72438535 0.07104282
Axis point 691.64324610 0.00000000 297.59966083
Rotation angle (degrees) 157.55839594
Shift along axis -72.23678210
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2448, overlap = 7.307e+04
steps = 44, shift = 0.0206, angle = 0.012 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01944506 -0.98293013 0.18294873 700.18026768
-0.92876678 0.08550322 0.36066809 482.67766728
-0.37015424 -0.16290349 -0.91457547 820.76479046
Axis -0.68572161 0.72439886 0.07093774
Axis point 691.63992080 0.00000000 297.65183507
Rotation angle (degrees) 157.55683035
Shift along axis -72.25438343
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2456, overlap = 7.308e+04
steps = 64, shift = 0.0264, angle = 0.0214 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01944809 -0.98299735 0.18258692 700.28313329
-0.92874477 0.08538287 0.36075327 482.68981639
-0.37020931 -0.16256068 -0.91461418 820.68783145
Axis -0.68573673 0.72436951 0.07109114
Axis point 691.64373067 0.00000000 297.58952359
Rotation angle (degrees) 157.56899652
Shift along axis -72.22044120
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.2455, overlap = 7.308e+04
steps = 60, shift = 0.015, angle = 0.0185 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01951837 -0.98295905 0.18278549 700.24137789
-0.92883174 0.08548123 0.36050598 482.74593147
-0.36998734 -0.16274047 -0.91467202 820.68433135
Axis -0.68571308 0.72440733 0.07093370
Axis point 691.61036112 0.00000000 297.66033593
Rotation angle (degrees) 157.57123213
Shift along axis -72.24581097
Correlation = 0.8303, Correlation about mean = 0.2455, Overlap = 7.308e+04
[Repeated 4 time(s)]Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8303, correlation about mean = 0.245, overlap = 7.307e+04
steps = 64, shift = 0.0228, angle = 0.0129 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01957321 -0.98291969 0.18299119 700.19643128
-0.92880719 0.08561719 0.36053697 482.69475046
-0.37004607 -0.16290667 -0.91461867 820.74375486
Axis -0.68567881 0.72444463 0.07088403
Axis point 691.59449907 0.00000000 297.67967073
Rotation angle (degrees) 157.56113685
Shift along axis -72.24660686
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 103460 points
correlation = 0.8304, correlation about mean = 0.2457, overlap = 7.308e+04
steps = 84, shift = 0.0208, angle = 0.00538 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01952941 -0.98293179 0.18293085 700.20801225
-0.92878778 0.08556390 0.36059961 482.70085315
-0.37009710 -0.16286164 -0.91460605 820.72617685
Axis -0.68569509 0.72442525 0.07092460
Axis point 691.61687085 0.00000000 297.65094012
Rotation angle (degrees) 157.56090226
Shift along axis -72.23882854
> volume #2 level 0.4846
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2019, overlap = 6.26e+04
steps = 76, shift = 0.0539, angle = 0.0341 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01963473 -0.98295462 0.18279686 700.27400008
-0.92899733 0.08551802 0.36007031 482.91586900
-0.36956520 -0.16274791 -0.91484134 820.63619010
Axis -0.68569398 0.72444173 0.07076683
Axis point 691.57973666 0.00000000 297.76131369
Rotation angle (degrees) 157.58992687
Shift along axis -72.25543273
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.202, overlap = 6.261e+04
steps = 80, shift = 0.0152, angle = 0.00787 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01966917 -0.98293212 0.18291411 700.24073969
-0.92901741 0.08558335 0.36000296 482.92707850
-0.36951288 -0.16284944 -0.91484441 820.65074203
Axis -0.68567814 0.72446279 0.07070472
Axis point 691.56536541 0.00000000 297.78768060
Rotation angle (degrees) 157.58783658
Shift along axis -72.25318294
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2015, overlap = 6.26e+04
steps = 48, shift = 0.0178, angle = 0.00919 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01968337 -0.98292717 0.18293920 700.23432821
-0.92895870 0.08563128 0.36014304 482.85880700
-0.36965970 -0.16285413 -0.91478426 820.67858118
Axis -0.68566333 0.72447198 0.07075410
Axis point 691.56121905 0.00000000 297.76075823
Rotation angle (degrees) 157.58078314
Shift along axis -72.24094518
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2016, overlap = 6.26e+04
steps = 64, shift = 0.00348, angle = 0.00523 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01976947 -0.98292794 0.18292574 700.25736310
-0.92896722 0.08570067 0.36010455 482.85613182
-0.36963369 -0.16281294 -0.91480210 820.66642810
Axis -0.68563417 0.72449981 0.07075172
Axis point 691.53340918 0.00000000 297.76581839
Rotation angle (degrees) 157.58337905
Shift along axis -72.22764265
> hide #!2 models
> show #!2 models
> volume #1 level 1.064
> volume #1 level 1.164
> hide #!2 models
> show #!2 models
> volume #1 level 0.8376
> volume #1 level 0.7623
> show #!2 models
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2014, overlap = 6.26e+04
steps = 44, shift = 0.0126, angle = 0.00882 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01964491 -0.98294479 0.18284859 700.25574202
-0.92898640 0.08555101 0.36009067 482.89827858
-0.36959213 -0.16278991 -0.91482299 820.66624587
Axis -0.68568599 0.72445006 0.07075901
Axis point 691.57566877 0.00000000 297.77043949
Rotation angle (degrees) 157.58683370
Shift along axis -72.25033161
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8498, correlation about mean = 0.2024, overlap = 6.261e+04
steps = 44, shift = 0.0229, angle = 0.0106 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01967993 -0.98297502 0.18268224 700.30850241
-0.92896308 0.08553209 0.36015532 482.89281262
-0.36964888 -0.16261722 -0.91483077 820.62111485
Axis -0.68567891 0.72444853 0.07084314
Axis point 691.56821846 0.00000000 297.72866920
Rotation angle (degrees) 157.59147228
Shift along axis -72.22040419
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.202, overlap = 6.261e+04
steps = 60, shift = 0.0112, angle = 0.0124 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01971532 -0.98294145 0.18285901 700.26816978
-0.92900400 0.08561093 0.36003103 482.91259926
-0.36954415 -0.16277862 -0.91484438 820.64561513
Axis -0.68566251 0.72447426 0.07073872
Axis point 691.55390405 0.00000000 297.77666488
Rotation angle (degrees) 157.58923023
Shift along axis -72.23845967
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2018, overlap = 6.26e+04
steps = 44, shift = 0.00634, angle = 0.00344 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01966463 -0.98294830 0.18282763 700.26463194
-0.92900463 0.08555319 0.36004311 482.91698048
-0.36954525 -0.16276760 -0.91484589 820.64310364
Axis -0.68568258 0.72445429 0.07074880
Axis point 691.56683970 0.00000000 297.77297242
Rotation angle (degrees) 157.58987338
Shift along axis -72.24846572
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2021, overlap = 6.261e+04
steps = 64, shift = 0.016, angle = 0.006 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01970819 -0.98295984 0.18276090 700.30379259
-0.92897954 0.08557929 0.36010164 482.89324723
-0.36960600 -0.16268418 -0.91483619 820.62758081
Axis -0.68566685 0.72446431 0.07079859
Axis point 691.56046734 0.00000000 297.74711635
Rotation angle (degrees) 157.59045655
Shift along axis -72.23690060
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.202, overlap = 6.26e+04
steps = 76, shift = 0.016, angle = 0.00697 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01979856 -0.98294418 0.18283534 700.29060400
-0.92896663 0.08569418 0.36010763 482.85855476
-0.36963362 -0.16271832 -0.91481896 820.63592326
Axis -0.68562842 0.72450195 0.07078558
Axis point 691.52395701 0.00000000 297.75003386
Rotation angle (degrees) 157.58731851
Shift along axis -72.21798137
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2016, overlap = 6.26e+04
steps = 44, shift = 0.0124, angle = 0.00429 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01974131 -0.98294236 0.18285127 700.27523670
-0.92895074 0.08565511 0.36015792 482.85006165
-0.36967662 -0.16274984 -0.91479598 820.65988235
Axis -0.68564598 0.72448443 0.07079478
Axis point 691.54577864 0.00000000 297.74698762
Rotation angle (degrees) 157.58422625
Shift along axis -72.22510591
> hide #!1 models
> show #!1 models
> volume #1 level 1.39
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> volume #2 color #ff3d3980
> view matrix models
> #2,-0.019741,-0.98294,0.18285,699.93,-0.92895,0.085655,0.36016,481.96,-0.36968,-0.16275,-0.9148,821.91
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8498, correlation about mean = 0.2023, overlap = 6.261e+04
steps = 68, shift = 1.58, angle = 0.0109 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01978296 -0.98292291 0.18295130 700.25277525
-0.92900646 0.08570497 0.36000230 482.90471695
-0.36953435 -0.16284102 -0.91483723 820.65477674
Axis -0.68563351 0.72450513 0.07070365
Axis point 691.53208892 0.00000000 297.78854678
Rotation angle (degrees) 157.58670871
Shift along axis -72.22653968
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2018, overlap = 6.26e+04
steps = 76, shift = 0.0167, angle = 0.00644 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01980237 -0.98293646 0.18287641 700.28110280
-0.92897694 0.08570815 0.36007772 482.86683396
-0.36960752 -0.16275758 -0.91482253 820.65079604
Axis -0.68562631 0.72450640 0.07076046
Axis point 691.52470278 0.00000000 297.76571024
Rotation angle (degrees) 157.58682354
Shift along axis -72.22140553
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2018, overlap = 6.26e+04
steps = 60, shift = 0.0135, angle = 0.0071 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01973951 -0.98295396 0.18278913 700.29471833
-0.92895691 0.08562800 0.36014845 482.85800946
-0.36966121 -0.16269408 -0.91481212 820.63800506
Axis -0.68565082 0.72447824 0.07081123
Axis point 691.54490329 0.00000000 297.73948163
Rotation angle (degrees) 157.58734136
Shift along axis -72.22714262
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2024, overlap = 6.261e+04
steps = 56, shift = 0.0274, angle = 0.0126 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01974711 -0.98296459 0.18273112 700.31822686
-0.92903544 0.08557907 0.35995747 482.94987973
-0.36946341 -0.16265557 -0.91489888 820.60931681
Axis -0.68566232 0.72447290 0.07075443
Axis point 691.54643224 0.00000000 297.78033622
Rotation angle (degrees) 157.59810932
Shift along axis -72.23597426
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.202, overlap = 6.261e+04
steps = 60, shift = 0.0238, angle = 0.0159 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01980726 -0.98291479 0.18299231 700.24561918
-0.92901251 0.08573936 0.35997849 482.89837659
-0.36951783 -0.16287196 -0.91483840 820.65791122
Axis -0.68562341 0.72451670 0.07068305
Axis point 691.52041684 0.00000000 297.79758113
Rotation angle (degrees) 157.58603832
Shift along axis -72.23024661
Correlation = 0.8497, Correlation about mean = 0.202, Overlap = 6.261e+04
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8498, correlation about mean = 0.2025, overlap = 6.261e+04
steps = 48, shift = 0.0215, angle = 0.0128 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01976989 -0.98295570 0.18277647 700.30845772
-0.92901891 0.08562361 0.35998954 482.92842056
-0.36950375 -0.16268584 -0.91487720 820.61198187
Axis -0.68564933 0.72448518 0.07075468
Axis point 691.53845603 0.00000000 297.77183417
Rotation angle (degrees) 157.59484440
Shift along axis -72.22940734
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2019, overlap = 6.26e+04
steps = 40, shift = 0.0185, angle = 0.00793 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01981030 -0.98294962 0.18280480 700.30882037
-0.92897019 0.08569208 0.36009896 482.86202152
-0.36962406 -0.16268654 -0.91482848 820.63172392
Axis -0.68562631 0.72450319 0.07079332
Axis point 691.52386951 0.00000000 297.75019256
Rotation angle (degrees) 157.58907415
Shift along axis -72.21983899
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2016, overlap = 6.26e+04
steps = 48, shift = 0.0126, angle = 0.00676 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01973629 -0.98294907 0.18281575 700.28394304
-0.92893770 0.08564328 0.36019435 482.83584617
-0.36970965 -0.16271554 -0.91478873 820.65202387
Axis -0.68564783 0.72448015 0.07082057
Axis point 691.54538160 0.00000000 297.73309704
Rotation angle (degrees) 157.58419361
Shift along axis -72.22413454
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2022, overlap = 6.261e+04
steps = 48, shift = 0.0211, angle = 0.012 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01976672 -0.98294432 0.18283802 700.28927310
-0.92901291 0.08564591 0.35999970 482.90994666
-0.36951899 -0.16274287 -0.91486090 820.62146339
Axis -0.68564634 0.72448961 0.07073820
Axis point 691.53447801 0.00000000 297.77429068
Rotation angle (degrees) 157.59170487
Shift along axis -72.23824761
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2016, overlap = 6.26e+04
steps = 84, shift = 0.0192, angle = 0.0148 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01956391 -0.98294626 0.18284939 700.24114192
-0.92895770 0.08549050 0.36017908 482.88166566
-0.36966856 -0.16281284 -0.91478803 820.66812346
Axis -0.68571111 0.72442363 0.07078610
Axis point 691.60349005 0.00000000 297.74527324
Rotation angle (degrees) 157.58266801
Shift along axis -72.26034922
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2021, overlap = 6.26e+04
steps = 96, shift = 0.0139, angle = 0.00815 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01966761 -0.98296194 0.18275396 700.29403494
-0.92896054 0.08554831 0.36015802 482.88083451
-0.36965592 -0.16268777 -0.91481538 820.63327468
Axis -0.68567917 0.72445060 0.07081942
Axis point 691.57307699 0.00000000 297.73364856
Rotation angle (degrees) 157.58817110
Shift along axis -72.23695102
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2018, overlap = 6.26e+04
steps = 44, shift = 0.0167, angle = 0.00837 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01972537 -0.98293656 0.18288420 700.26352302
-0.92895095 0.08565263 0.36015796 482.85593227
-0.36967694 -0.16278620 -0.91478938 820.66670847
Axis -0.68565000 0.72448183 0.07078238
Axis point 691.55387991 0.00000000 297.74948654
Rotation angle (degrees) 157.58271952
Shift along axis -72.22659099
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8497, correlation about mean = 0.2024, overlap = 6.261e+04
steps = 48, shift = 0.0202, angle = 0.0135 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01982333 -0.98295158 0.18279283 700.31404226
-0.92902095 0.08567716 0.35997152 482.91887169
-0.36949574 -0.16268253 -0.91488102 820.61018598
Axis -0.68562946 0.72450469 0.07074743
Axis point 691.51908582 0.00000000 297.77641811
Rotation angle (degrees) 157.59512364
Shift along axis -72.22288802
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.2039, overlap = 6.25e+04
steps = 76, shift = 0.217, angle = 0.298 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01703569 -0.98241367 0.18593861 698.77550353
-0.92792604 0.08479333 0.36299222 482.18746915
-0.37237487 -0.16635345 -0.91305174 821.60160183
Axis -0.68631130 0.72386886 0.07064472
Axis point 692.51288544 0.00000000 297.35139770
Rotation angle (degrees) 157.31618300
Shift along axis -72.49521553
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8502, correlation about mean = 0.2044, overlap = 6.251e+04
steps = 80, shift = 0.0281, angle = 0.0734 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01583374 -0.98250033 0.18558660 698.62103197
-0.92804102 0.08352259 0.36299290 482.50758417
-0.37214132 -0.16648444 -0.91312309 821.58737595
Axis -0.68678061 0.72342420 0.07063872
Axis point 692.90093891 0.00000000 297.34948004
Rotation angle (degrees) 157.32659495
Shift along axis -72.70583463
> view matrix models
> #2,-0.015834,-0.9825,0.18559,698.24,-0.92804,0.083523,0.36299,481.48,-0.37214,-0.16648,-0.91312,818.42
> view matrix models
> #2,-0.015834,-0.9825,0.18559,695.99,-0.92804,0.083523,0.36299,480.44,-0.37214,-0.16648,-0.91312,827.87
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8502, correlation about mean = 0.2044, overlap = 6.251e+04
steps = 136, shift = 7.12, angle = 0.113 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01389786 -0.98255605 0.18544665 698.23416243
-0.92819447 0.08164637 0.36302741 482.95488579
-0.37183582 -0.16708525 -0.91313780 821.65588086
Axis -0.68750875 0.72274557 0.07050211
Axis point 693.51485063 0.00000000 297.38219016
Rotation angle (degrees) 157.32325533
Shift along axis -73.06011705
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.204, overlap = 6.249e+04
steps = 64, shift = 0.0296, angle = 0.0231 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01389304 -0.98248174 0.18584026 698.10872921
-0.92820777 0.08178143 0.36296299 482.93653564
-0.37180280 -0.16745571 -0.91308338 821.72127655
Axis -0.68749120 0.72277748 0.07034609
Axis point 693.50500060 0.00000000 297.43360387
Rotation angle (degrees) 157.30882153
Shift along axis -73.08307743
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8502, correlation about mean = 0.2043, overlap = 6.25e+04
steps = 60, shift = 0.0134, angle = 0.0123 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01377218 -0.98251608 0.18566763 698.13611763
-0.92821605 0.08160427 0.36298169 482.97921387
-0.37178662 -0.16734063 -0.91311107 821.69851829
Axis -0.68754529 0.72272095 0.07039819
Axis point 693.54910229 0.00000000 297.41712534
Rotation angle (degrees) 157.31505974
Shift along axis -73.09491607
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.2036, overlap = 6.249e+04
steps = 44, shift = 0.0223, angle = 0.0123 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01388612 -0.98249326 0.18577990 698.12374040
-0.92816132 0.08177376 0.36308348 482.88998631
-0.37191899 -0.16739190 -0.91304776 821.73336000
Axis -0.68749034 0.72277172 0.07041360
Axis point 693.50853293 0.00000000 297.40485559
Rotation angle (degrees) 157.30623227
Shift along axis -73.07289614
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8502, correlation about mean = 0.2041, overlap = 6.251e+04
steps = 48, shift = 0.0321, angle = 0.0204 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01374713 -0.98255395 0.18546899 698.19686889
-0.92819710 0.08151667 0.36304983 482.97660967
-0.37183486 -0.16716088 -0.91312435 821.67794468
Axis -0.68756233 0.72269594 0.07048844
Axis point 693.56461110 0.00000000 297.38706290
Rotation angle (degrees) 157.32069257
Shift along axis -73.08983248
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.2037, overlap = 6.25e+04
steps = 44, shift = 0.0241, angle = 0.0157 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01381660 -0.98250444 0.18572592 698.12828694
-0.92817972 0.08168247 0.36305699 482.92400384
-0.37187566 -0.16737082 -0.91306928 821.72410399
Axis -0.68752095 0.72274259 0.07041370
Axis point 693.53325865 0.00000000 297.40811411
Rotation angle (degrees) 157.30944723
Shift along axis -73.08744563
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.2038, overlap = 6.25e+04
steps = 40, shift = 0.00883, angle = 0.0054 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01384603 -0.98249340 0.18578215 698.11614086
-0.92820468 0.08171870 0.36298503 482.94285541
-0.37181227 -0.16741796 -0.91308645 821.72229444
Axis -0.68751086 0.72275652 0.07036930
Axis point 693.52145277 0.00000000 297.42810710
Rotation angle (degrees) 157.31021647
Shift along axis -73.08830763
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8501, correlation about mean = 0.2037, overlap = 6.249e+04
steps = 44, shift = 0.00654, angle = 0.0122 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01365178 -0.98248743 0.18582811 698.06079790
-0.92817954 0.08157076 0.36308257 482.94458438
-0.37188220 -0.16752513 -0.91303831 821.75301096
Axis -0.68757491 0.72269517 0.07037354
Axis point 693.58626677 0.00000000 297.41493978
Rotation angle (degrees) 157.30320322
Shift along axis -73.11770990
> view matrix models
> #2,-0.013652,-0.98249,0.18583,695.38,-0.92818,0.081571,0.36308,479.17,-0.37188,-0.16753,-0.91304,831.74
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8081, correlation about mean = 0.1457, overlap = 5.184e+04
steps = 76, shift = 3.79, angle = 0.766 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.01990612 -0.98446922 0.17442504 701.74111810
-0.92904458 0.08267739 0.36061146 480.52120034
-0.36943189 -0.15487026 -0.91626158 826.07941088
Axis -0.68604557 0.72380964 0.07376369
Axis point 690.58678955 0.00000000 300.75027937
Rotation angle (degrees) 157.93299853
Shift along axis -72.68584478
> view matrix models
> #2,-0.019906,-0.98447,0.17443,703.6,-0.92904,0.082677,0.36061,477.49,-0.36943,-0.15487,-0.91626,834.49
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8081, correlation about mean = 0.1456, overlap = 5.185e+04
steps = 96, shift = 9.14, angle = 0.0227 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02027938 -0.98443919 0.17455151 701.78197149
-0.92904601 0.08306218 0.36051933 480.45792527
-0.36940799 -0.15485528 -0.91627375 826.07328953
Axis -0.68590443 0.72394764 0.07372196
Axis point 690.46360067 0.00000000 300.77377517
Rotation angle (degrees) 157.93304629
Shift along axis -72.62923848
> view matrix models
> #2,-0.020279,-0.98444,0.17455,697.61,-0.92905,0.083062,0.36052,478.02,-0.36941,-0.15486,-0.91627,832.28
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.8081, correlation about mean = 0.1456, overlap = 5.181e+04
steps = 84, shift = 7.87, angle = 0.266 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
-0.02482232 -0.98437432 0.17433026 702.86192520
-0.92861295 0.08728424 0.36063757 479.37865296
-0.37021865 -0.15293347 -0.91626934 825.83600058
Axis -0.68421542 0.72548630 0.07428922
Axis point 689.05501109 0.00000000 300.61908822
Rotation angle (degrees) 157.95719160
Shift along axis -71.77560279
> view matrix models
> #2,-0.024822,-0.98437,0.17433,732.11,-0.92861,0.087284,0.36064,490.15,-0.37022,-0.15293,-0.91627,780.97
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.6722, correlation about mean = 0.1717, overlap = 3.958e+04
steps = 368, shift = 22, angle = 4.72 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.05111543 -0.98332976 0.17449869 694.34096379
-0.93896627 0.01219910 0.34379286 520.11858123
-0.34019047 -0.18142150 -0.92268991 778.43725259
Axis -0.71293085 0.69864385 0.06021942
Axis point 0.00000000 705.16803356 340.98527469
Rotation angle (degrees) 158.38618415
Shift along axis -84.76240677
> view matrix models
> #2,0.051115,-0.98333,0.1745,691.61,-0.93897,0.012199,0.34379,517.59,-0.34019,-0.18142,-0.92269,788.66
> view matrix models
> #2,0.051115,-0.98333,0.1745,692.76,-0.93897,0.012199,0.34379,519.35,-0.34019,-0.18142,-0.92269,787.79
> view matrix models
> #2,0.051115,-0.98333,0.1745,692.53,-0.93897,0.012199,0.34379,519.02,-0.34019,-0.18142,-0.92269,789.16
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.6863, correlation about mean = 0.1597, overlap = 4.076e+04
steps = 156, shift = 3.51, angle = 2.65 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.09621111 -0.97884819 0.18055373 680.49578731
-0.93827191 -0.02863911 0.34471094 525.99418654
-0.33224878 -0.20257351 -0.92118115 788.85748313
Axis -0.72865561 0.68274628 0.05402334
Axis point 0.00000000 687.99156565 340.71370061
Rotation angle (degrees) 157.94206209
Shift along axis -94.10977957
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.6865, correlation about mean = 0.1596, overlap = 4.082e+04
steps = 44, shift = 0.0467, angle = 0.554 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.10562142 -0.97788820 0.18049592 678.19837275
-0.93804656 -0.03774091 0.34444777 528.08012320
-0.33001933 -0.20569464 -0.92129092 789.08294443
Axis -0.73198289 0.67925763 0.05301063
Axis point 0.00000000 684.51951204 340.06538260
Rotation angle (degrees) 157.92690648
Shift along axis -95.89736466
> view matrix models
> #2,0.10562,-0.97789,0.1805,676.64,-0.93805,-0.037741,0.34445,525.45,-0.33002,-0.20569,-0.92129,807.09
> select #3
12762 atoms, 12849 bonds, 1908 residues, 1 model selected
> ~select #3
Nothing selected
> select #1
2 models selected
> ~select #1
Nothing selected
> select #2
2 models selected
> ~select #2
Nothing selected
> select #4
12762 atoms, 12849 bonds, 1908 residues, 1 model selected
> show #4 models
> ~select #4
Nothing selected
> select #2
2 models selected
> view matrix models
> #2,0.10562,-0.97789,0.1805,716.63,-0.93805,-0.037741,0.34445,528.67,-0.33002,-0.20569,-0.92129,767.18
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.50799,0.54882,-0.66388,467.14,-0.5235,0.80877,0.26803,261.06,0.68402,0.21139,0.69816,88.534
> view matrix models
> #2,-0.29765,0.71061,-0.63753,607.08,-0.76549,-0.57669,-0.2854,749.26,-0.57047,0.40307,0.71561,325.19
> view matrix models
> #2,-0.30382,0.70163,-0.64452,612.03,-0.72968,-0.60634,-0.3161,754.58,-0.61258,0.37426,0.69618,345.46
> ui mousemode right "translate selected models"
> view matrix models
> #2,-0.30382,0.70163,-0.64452,651.47,-0.72968,-0.60634,-0.3161,778.68,-0.61258,0.37426,0.69618,310.22
> view matrix models
> #2,-0.30382,0.70163,-0.64452,673.03,-0.72968,-0.60634,-0.3161,798.76,-0.61258,0.37426,0.69618,292.3
> view matrix models
> #2,-0.30382,0.70163,-0.64452,645.03,-0.72968,-0.60634,-0.3161,752.7,-0.61258,0.37426,0.69618,244.35
> view matrix models
> #2,-0.30382,0.70163,-0.64452,573.91,-0.72968,-0.60634,-0.3161,758.74,-0.61258,0.37426,0.69618,183.82
> view matrix models
> #2,-0.30382,0.70163,-0.64452,556.72,-0.72968,-0.60634,-0.3161,800.93,-0.61258,0.37426,0.69618,187.34
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.1804,0.78745,-0.58939,497.39,-0.80495,-0.46255,-0.37161,797.75,-0.56525,0.40739,0.71731,164.54
> ui mousemode right "translate selected models"
> view matrix models
> #2,-0.1804,0.78745,-0.58939,540.52,-0.80495,-0.46255,-0.37161,772.56,-0.56525,0.40739,0.71731,187.84
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.57297,0.8019,-0.16927,274.72,-0.81168,0.52661,-0.25272,525.21,-0.11352,0.2822,0.95262,62.252
> view matrix models
> #2,0.66188,0.73425,-0.151,265.84,-0.74648,0.62721,-0.22219,481.11,-0.068438,0.25978,0.96324,54.776
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.66188,0.73425,-0.151,257.23,-0.74648,0.62721,-0.22219,487.39,-0.068438,0.25978,0.96324,44.053
> view matrix models
> #2,0.66188,0.73425,-0.151,274.26,-0.74648,0.62721,-0.22219,499.92,-0.068438,0.25978,0.96324,60.049
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7212, correlation about mean = 0.08894, overlap = 4.757e+04
steps = 520, shift = 15.7, angle = 11.4 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.76814798 0.60015894 -0.22306484 292.37434781
-0.63938448 0.70068368 -0.31659100 493.35287716
-0.03370703 0.38581293 0.92196107 35.26238990
Axis 0.48871287 -0.13174983 -0.86243940
Axis point 839.52116208 -124.17944795 0.00000000
Rotation angle (degrees) 45.94118889
Shift along axis 47.47627284
> view matrix models
> #2,0.76815,0.60016,-0.22306,293.16,-0.63938,0.70068,-0.31659,498.75,-0.033707,0.38581,0.92196,27.798
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7317, correlation about mean = 0.09708, overlap = 4.826e+04
steps = 140, shift = 2.96, angle = 2.29 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.74576929 0.62537181 -0.22964811 295.12666522
-0.66427139 0.67178947 -0.32778412 512.28290351
-0.05071176 0.39700000 0.91641656 27.65218690
Axis 0.48638740 -0.12008043 -0.86545247
Axis point 826.52636494 -90.72941463 0.00000000
Rotation angle (degrees) 48.16500517
Shift along axis 58.09908924
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7319, correlation about mean = 0.09744, overlap = 4.83e+04
steps = 44, shift = 0.03, angle = 0.42 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.74105350 0.63082294 -0.23000464 295.05487942
-0.66934242 0.66694396 -0.32736291 514.40853721
-0.05310783 0.39654529 0.91647771 28.26685186
Axis 0.48306024 -0.11804233 -0.86759369
Axis point 821.70344534 -86.56380177 0.00000000
Rotation angle (degrees) 48.52925211
Shift along axis 57.28315402
Correlation = 1, Correlation about mean = 1, Overlap = 1.15e+05
[Repeated 3 time(s)]Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.732, correlation about mean = 0.09765, overlap = 4.834e+04
steps = 40, shift = 0.0288, angle = 0.31 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.73754284 0.63483530 -0.23024922 295.00928011
-0.67306863 0.66336001 -0.32700476 515.96004818
-0.05485603 0.39615355 0.91654415 28.72024700
Axis 0.48057723 -0.11655812 -0.86917186
Axis point 818.17824875 -83.54448403 0.00000000
Rotation angle (degrees) 48.79740767
Shift along axis 56.67257874
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7322, correlation about mean = 0.09783, overlap = 4.837e+04
steps = 44, shift = 0.0155, angle = 0.314 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.73397161 0.63887872 -0.23047700 294.95504724
-0.67681075 0.65968963 -0.32670596 517.55361006
-0.05668220 0.39578221 0.91659346 29.19438099
Axis 0.47814065 -0.11501691 -0.87071961
Axis point 814.68641554 -80.46915291 0.00000000
Rotation angle (degrees) 49.07069272
Shift along axis 56.08246234
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7322, correlation about mean = 0.09801, overlap = 4.839e+04
steps = 40, shift = 0.042, angle = 0.181 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.73187083 0.64118702 -0.23074726 294.99661113
-0.67900859 0.65757602 -0.32640635 518.44261060
-0.05755365 0.39556666 0.91663220 29.41485015
Axis 0.47666070 -0.11434581 -0.87161896
Axis point 812.66600743 -78.83889936 0.00000000
Rotation angle (degrees) 49.22883692
Shift along axis 55.69300817
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.77561,-0.58518,-0.23662,562.59,0.61304,0.78765,0.061563,111.85,0.15035,-0.19281,0.96965,103.28
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7385, correlation about mean = 0.09149, overlap = 4.742e+04
steps = 256, shift = 14.8, angle = 21.3 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.69791827 -0.68050084 -0.22322340 600.38887660
0.61361925 0.72890891 -0.30358395 208.87445733
0.36929866 0.07490261 0.92628726 -6.71301699
Axis 0.25698783 -0.40231536 0.87869199
Axis point -2.96992066 859.28792408 0.00000000
Rotation angle (degrees) 47.42480517
Shift along axis 64.36055731
> view matrix models
> #2,0.52644,-0.84201,-0.11787,652.41,0.75972,0.5281,-0.37938,237.7,0.38169,0.11017,0.9177,-15.573
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7376, correlation about mean = 0.1041, overlap = 4.889e+04
steps = 140, shift = 1.45, angle = 6.47 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.55808740 -0.80625744 -0.19618202 652.49015556
0.74578490 0.59102590 -0.30739756 211.02073869
0.36379023 0.02524511 0.93113874 4.48860198
Axis 0.19762888 -0.33268940 0.92209576
Axis point 95.60281592 741.46798659 0.00000000
Rotation angle (degrees) 57.30778186
Shift along axis 62.88545720
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.55809,-0.80626,-0.19618,651.67,0.74578,0.59103,-0.3074,209.76,0.36379,0.025245,0.93114,5.922
> view matrix models
> #2,0.55809,-0.80626,-0.19618,646.81,0.74578,0.59103,-0.3074,205.27,0.36379,0.025245,0.93114,0.416
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7375, correlation about mean = 0.1023, overlap = 4.89e+04
steps = 148, shift = 9.04, angle = 0.585 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.56636824 -0.80052742 -0.19591545 649.28504496
0.73985140 0.59859517 -0.30708914 210.58784275
0.36310732 0.02897721 0.93129662 3.76663804
Axis 0.20090214 -0.33418661 0.92084615
Axis point 91.24451863 745.70098408 0.00000000
Rotation angle (degrees) 56.76118137
Shift along axis 63.53561386
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7376, correlation about mean = 0.1027, overlap = 4.89e+04
steps = 76, shift = 0.00588, angle = 0.127 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.56458474 -0.80177204 -0.19597364 649.98138859
0.74116287 0.59696745 -0.30709519 210.66062283
0.36321022 0.02813287 0.93128238 3.93887932
Axis 0.20013303 -0.33383590 0.92114079
Axis point 92.21879940 744.77840078 0.00000000
Rotation angle (degrees) 56.87843076
Shift along axis 63.38492777
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7376, correlation about mean = 0.1029, overlap = 4.889e+04
steps = 44, shift = 0.0278, angle = 0.00745 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.56455298 -0.80181824 -0.19587610 649.96376629
0.74123236 0.59690429 -0.30705025 210.63654198
0.36311778 0.02815642 0.93131772 3.92893049
Axis 0.20011562 -0.33371474 0.92118848
Axis point 92.26159551 744.68556258 0.00000000
Rotation angle (degrees) 56.88046890
Shift along axis 63.39466842
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7376, correlation about mean = 0.1031, overlap = 4.889e+04
steps = 60, shift = 0.0173, angle = 0.105 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.56305772 -0.80285371 -0.19593859 650.55088601
0.74226343 0.59553972 -0.30720910 210.75537002
0.36333318 0.02753840 0.93125219 4.04209099
Axis 0.19961451 -0.33350140 0.92137444
Axis point 93.00161841 743.94581304 0.00000000
Rotation angle (degrees) 56.98047424
Shift along axis 63.29646442
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7376, correlation about mean = 0.1032, overlap = 4.889e+04
steps = 44, shift = 0.00555, angle = 0.0493 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.56238217 -0.80334335 -0.19587176 650.79753698
0.74279425 0.59489183 -0.30718138 210.77254705
0.36329463 0.02726091 0.93127539 4.10435087
Axis 0.19933215 -0.33327077 0.92151901
Axis point 93.37804268 743.54674062 0.00000000
Rotation angle (degrees) 57.02488714
Shift along axis 63.26278165
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.73635,-0.65881,-0.15414,569.75,0.62284,0.74901,-0.22595,185.36,0.26431,0.070376,0.96187,10.061
> view matrix models
> #2,0.72898,-0.68415,-0.022789,548.3,0.66728,0.71764,-0.19932,176.53,0.15272,0.13009,0.97967,17.936
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7386, correlation about mean = 0.09183, overlap = 4.742e+04
steps = 136, shift = 6.46, angle = 13.4 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.69613691 -0.68228974 -0.22332511 601.20651253
0.61531974 0.72730691 -0.30398400 208.97022349
0.36983106 0.07419813 0.92613154 -6.62669429
Axis 0.25621682 -0.40186084 0.87912502
Axis point -1.46062304 857.68818611 0.00000000
Rotation angle (degrees) 47.56233532
Shift along axis 64.23657805
Fit map cryosparc_P60_J513__localfilter.mrc in map
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc using 70723 points
correlation = 0.7388, correlation about mean = 0.09286, overlap = 4.742e+04
steps = 44, shift = 0.0211, angle = 0.304 degrees
Position of cryosparc_P60_J513__localfilter.mrc (#2) relative to
cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1) coordinates:
Matrix rotation and translation
0.69240917 -0.68595239 -0.22369367 602.94765198
0.61900961 0.72405559 -0.30425418 208.92936288
0.37067054 0.07219986 0.92595385 -6.31283301
Axis 0.25392577 -0.40091054 0.88022295
Axis point 2.06823312 854.45398948 0.00000000
Rotation angle (degrees) 47.83953186
Shift along axis 63.78526537
Correlation = 0.7388, Correlation about mean = 0.09286, Overlap = 4.742e+04
> volume #1 level 1.557
> volume #1 level 0.5567
> volume #1 level 1.044
> open EMDB 4783
'EMDB' has no suffix
> open EMDB:4783
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/cmd_line/tool.py", line 297, in execute
cmd.run(cmd_text)
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2856, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 71, in cmd_open
provider_args = mgr.fetch_args(fetches[0][1], format_name=fetches[0][2])
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/manager.py", line 170, in fetch_args
args.update(provider_info.bundle_info.run_provider(self.session,
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 381, in run_provider
return api._api_caller.run_provider(api, session, name, mgr, **kw)
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/__init__.py", line 1284, in run_provider
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/map/__init__.py", line 165, in run_provider
class Info(OpenerInfo):
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/map/__init__.py", line 167, in Info
_name=session.data_formats[name].nicknames[0], **kw):
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/data_formats/manager.py", line 145, in __getitem__
raise KeyError("No known data format '%s'" % key)
KeyError: "No known data format 'EMDB'"
KeyError: "No known data format 'EMDB'"
File
"/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/data_formats/manager.py", line 145, in __getitem__
raise KeyError("No known data format '%s'" % key)
See log for complete Python traceback.
> open emdb:4783
Summary of feedback from opening 4783 fetched from emdb
---
note | Fetching compressed map 4783 from
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-4783/map/emd_4783.map.gz
Opened emdb 4783 as #5, grid size 240,240,896, pixel 1.35,1.35,1.35, shown at
level 0.126, step 2, values float32
> hide #!5 models
> show #!5 models
> volume #5 level 0.05259
> volume #5 step 1
> hide #!5 models
> show #!5 models
> view matrix models
> #2,0.7515,-0.53605,-0.38457,616.26,0.45835,0.84349,-0.28006,140.87,0.47451,0.0342,0.87959,35.307
> select #1
2 models selected
> view matrix models
> #1,-0.35593,-0.35575,0.86415,502.54,0.16341,0.88677,0.43237,-218.7,-0.92012,0.29511,-0.25749,884.5
> ui mousemode right "translate selected models"
> view matrix models
> #1,-0.35593,-0.35575,0.86415,429.71,0.16341,0.88677,0.43237,-688.72,-0.92012,0.29511,-0.25749,928.61
> view matrix models
> #1,-0.35593,-0.35575,0.86415,91.287,0.16341,0.88677,0.43237,-634.58,-0.92012,0.29511,-0.25749,856.15
> ui mousemode right "rotate selected models"
> view matrix models
> #1,-0.96554,-0.0022687,-0.26025,733.03,0.001497,0.9999,-0.014271,-410.71,0.26026,-0.014168,-0.96544,655.03
> view matrix models
> #1,-0.68937,0.53216,-0.49151,463.45,0.41674,0.84631,0.33181,-709.7,0.59254,0.023911,-0.80518,397.88
> view matrix models
> #1,0.41531,0.74372,0.52384,-626.43,0.74269,-0.60973,0.27685,-259.41,0.52529,0.27407,-0.80558,330.52
> view matrix models
> #1,0.85255,0.16544,0.49578,-607.15,0.3284,-0.90751,-0.26189,304.69,0.4066,0.38608,-0.82802,356.26
> view matrix models
> #1,0.89633,0.13323,0.42291,-586.76,0.29361,-0.89306,-0.34094,349.84,0.33226,0.42976,-0.83959,382.24
> view matrix models
> #1,0.57746,-0.59497,-0.55906,287.93,-0.7974,-0.26409,-0.54259,749.33,0.17519,0.75912,-0.62693,241.3
> view matrix models
> #1,0.23451,-0.91532,-0.32741,504.42,-0.97082,-0.20316,-0.12739,643.52,0.050088,0.34773,-0.93626,604.72
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.23451,-0.91532,-0.32741,488.84,-0.97082,-0.20316,-0.12739,628.15,0.050088,0.34773,-0.93626,471.77
> ui tool show "Fit in Map"
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.2112, correlation about mean = 0.07343, overlap = 392.1
steps = 232, shift = 2.99, angle = 1.28 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.21928357 -0.92072264 -0.32277630 495.78128433
-0.97341790 -0.18403891 -0.13633516 623.02295426
0.06612347 0.34409229 -0.93660461 466.58240245
Axis 0.77444959 -0.62690686 -0.08494482
Axis point -0.00000000 464.68035936 321.46279694
Rotation angle (degrees) 161.93031453
Shift along axis -46.25351239
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.87874,-0.47717,0.011255,-172.62,-0.45495,-0.84448,-0.2826,682.32,0.14435,0.24321,-0.95917,476.24
> view matrix models
> #1,0.87908,-0.47628,0.01936,-176.53,-0.45235,-0.84635,-0.28119,681.13,0.15031,0.23843,-0.95946,475.19
> view matrix models
> #1,0.93362,-0.35717,-0.027957,-234.67,-0.35778,-0.93356,-0.021249,559.46,-0.01851,0.029842,-0.99938,666.52
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.93362,-0.35717,-0.027957,-231.78,-0.35778,-0.93356,-0.021249,600.68,-0.01851,0.029842,-0.99938,661.56
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5367, correlation about mean = 0.2388, overlap = 1896
steps = 404, shift = 16.8, angle = 17.9 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99851686 -0.05443057 -0.00118025 -419.60008164
-0.05443250 -0.99851605 -0.00167647 464.16809576
-0.00108725 0.00173823 -0.99999790 666.15784660
Axis 0.99962915 -0.02722575 -0.00056714
Axis point 0.00000000 226.08551800 333.15313656
Rotation angle (degrees) 179.90213961
Shift along axis -432.45959776
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5373, correlation about mean = 0.2397, overlap = 1897
steps = 44, shift = 0.0722, angle = 0.249 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99873318 -0.05031926 -0.00011421 -421.87650346
-0.05031934 -0.99873284 -0.00082361 461.81478676
-0.00007262 0.00082831 -0.99999966 666.03078574
Axis 0.99968325 -0.02516734 -0.00004683
Axis point 0.00000000 225.45934431 333.09867882
Rotation angle (degrees) 179.95266101
Shift along axis -433.39671450
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.2398, overlap = 1897
steps = 44, shift = 0.0308, angle = 0.111 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99882495 -0.04846261 0.00031123 -422.89187294
-0.04846246 -0.99882489 -0.00048622 460.75940637
0.00033443 0.00047057 -0.99999983 665.96835067
Axis 0.99970621 -0.02423790 0.00016128
Axis point 0.00000000 225.17348713 333.07216815
Rotation angle (degrees) 179.97258190
Shift along axis -433.82806194
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.2399, overlap = 1897
steps = 48, shift = 0.0106, angle = 0.0432 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99885970 -0.04773966 0.00046778 -423.27546735
-0.04773950 -0.99885976 -0.00034734 460.34516711
0.00048383 0.00032461 -0.99999983 665.95809322
Axis 0.99971490 -0.02387590 0.00023771
Axis point 0.00000000 225.06212469 333.06718663
Rotation angle (degrees) 179.98074478
Shift along axis -433.98764191
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-422.8,-0.04774,-0.99886,-0.00034734,463.57,0.00048383,0.00032461,-1,662.64
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-421.76,-0.04774,-0.99886,-0.00034734,464.55,0.00048383,0.00032461,-1,662.4
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-422.18,-0.04774,-0.99886,-0.00034734,462.75,0.00048383,0.00032461,-1,664.72
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-422.67,-0.04774,-0.99886,-0.00034734,463.56,0.00048383,0.00032461,-1,663.31
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-421.69,-0.04774,-0.99886,-0.00034734,463.14,0.00048383,0.00032461,-1,664.39
> view matrix models
> #1,0.99886,-0.04774,0.00046778,-423.29,-0.04774,-0.99886,-0.00034734,460.79,0.00048383,0.00032461,-1,665.48
> ui tool show "Fit in Map"
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.2401, overlap = 1896
steps = 68, shift = 0.645, angle = 0.0411 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99889081 -0.04708123 0.00071932 -423.64906556
-0.04708108 -0.99889105 -0.00022176 459.97195015
0.00072896 0.00018765 -0.99999972 665.88360142
Axis 0.99972269 -0.02354596 0.00036174
Axis point 0.00000000 224.96287472 333.04147767
Rotation angle (degrees) 179.98826785
Shift along axis -434.12118579
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.2401, overlap = 1896
steps = 40, shift = 0.00272, angle = 0.00499 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99888688 -0.04716398 0.00074617 -423.62005464
-0.04716382 -0.99888714 -0.00022252 460.01534642
0.00075584 0.00018708 -0.99999970 665.87013470
Axis 0.99972171 -0.02358737 0.00037518
Axis point 0.00000000 224.97612127 333.03759787
Rotation angle (degrees) 179.98826253
Shift along axis -434.10289512
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.99399,-0.099993,0.044589,-417.47,-0.097652,-0.99387,-0.051913,505.97,0.049506,0.047247,-0.99766,619.85
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5367, correlation about mean = 0.2388, overlap = 1896
steps = 184, shift = 2.48, angle = 4.66 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99850742 -0.05460252 -0.00122352 -419.50499234
-0.05460457 -0.99850660 -0.00170919 464.26586491
-0.00112836 0.00177345 -0.99999779 666.16376551
Axis 0.99962679 -0.02731185 -0.00058824
Axis point 0.00000000 226.11195668 333.15556717
Rotation angle (degrees) 179.90019234
Shift along axis -432.42025311
> view matrix models
> #1,0.99841,-0.056425,0.0006766,-419.49,-0.056429,-0.99837,0.0085341,460.92,0.00019396,-0.0085586,-0.99996,669.7
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.2399, overlap = 1897
steps = 60, shift = 0.42, angle = 0.686 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99881758 -0.04861424 0.00032297 -422.81176999
-0.04861407 -0.99881751 -0.00051605 460.84824157
0.00034767 0.00049974 -0.99999982 665.95043812
Axis 0.99970436 -0.02431381 0.00016754
Axis point 0.00000000 225.19790199 333.06785841
Rotation angle (degrees) 179.97089128
Shift along axis -433.78017227
> select clear
> select #1
2 models selected
> view matrix models
> #1,0.99848,-0.054155,0.010496,-424.57,-0.05422,-0.99851,0.0060552,460.95,0.010153,-0.0066151,-0.99993,663.68
> view matrix models
> #1,0.99846,-0.055498,-0.00094376,-419.26,-0.055506,-0.99836,-0.013695,469.76,-0.00018216,0.013727,-0.99991,660.75
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.99846,-0.055498,-0.00094376,-419.29,-0.055506,-0.99836,-0.013695,470.12,-0.00018216,0.013727,-0.99991,664.17
> view matrix models
> #1,0.99846,-0.055498,-0.00094376,-419.35,-0.055506,-0.99836,-0.013695,469.79,-0.00018216,0.013727,-0.99991,665.06
> ui tool show "Fit in Map"
Fit map cryosparc_P15_J790__localfilter_flipped_formodpot.mrc in map emdb 4783
using 53266 points
correlation = 0.5374, correlation about mean = 0.24, overlap = 1897
steps = 76, shift = 4.43, angle = 0.865 degrees
Position of cryosparc_P15_J790__localfilter_flipped_formodpot.mrc (#1)
relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99882712 -0.04841735 0.00037874 -422.92474467
-0.04841718 -0.99882711 -0.00043614 460.72398928
0.00039941 0.00041729 -0.99999983 665.96448220
Axis 0.99970675 -0.02421519 0.00019439
Axis point 0.00000000 225.16879654 333.07141622
Rotation angle (degrees) 179.97554384
Shift along axis -433.82778356
> sym #1 C6
No structures specified.
> sym #1
No structures specified.
> volume #1 level 1.337
> volume #1 level 0.7184
> open 6RAO
Summary of feedback from opening 6RAO fetched from pdb
---
note | Fetching compressed mmCIF 6rao from
http://files.rcsb.org/download/6rao.cif
6rao title:
Cryo-EM structure of the anti-feeding prophage (AFP) baseplate, 6-fold
symmetrised [more info...]
Chain information for 6rao #6
---
Chain | Description | UniProt
A B | Afp1 | Q6HAD8_9GAMM
C | Afp2 | Q6HAD7_9GAMM
D | Afp3 | Q6HAD6_9GAMM
E | Afp4 | Q6HAD5_9GAMM
F | Afp5 | Q6HAD4_9GAMM
G | Afp7 | Q6HAD2_9GAMM
H | Afp9 | Q6HAD0_9GAMM
I | Afp11 | Q6HAC8_9GAMM
J | Afp12 | Q6HAC7_9GAMM
6rao mmCIF Assemblies
---
1| author_and_software_defined_assembly
> hide atoms
> show cartoons
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> delete #6
> open /Users/bks523/Downloads/6rao-assembly1.cif
6rao-assembly1.cif title:
Cryo-EM structure of the anti-feeding prophage (AFP) baseplate, 6-fold
symmetrised [more info...]
Chain information for 6rao-assembly1.cif #6
---
Chain | Description
A A-2 A-3 A-4 A-5 A-6 B B-2 B-3 B-4 B-5 B-6 | Afp1
C C-2 C-3 C-4 C-5 C-6 | Afp2
D D-2 D-3 D-4 D-5 D-6 | Afp3
E E-2 E-3 E-4 E-5 E-6 | Afp4
F F-2 F-3 F-4 F-5 F-6 | Afp5
G G-2 G-3 G-4 G-5 G-6 | Afp7
H H-2 H-3 H-4 H-5 H-6 | Afp9
I I-2 I-3 I-4 I-5 I-6 | Afp11
J J-2 J-3 J-4 J-5 J-6 | Afp12
> hide atoms
> show cartoons
> select #6
134454 atoms, 137460 bonds, 90 pseudobonds, 17280 residues, 2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #6,0.69437,0.58146,-0.42398,32.951,0.7143,-0.6284,0.30804,-23.94,-0.087317,-0.51674,-0.85168,143.91
> ui mousemode right "translate selected models"
> view matrix models
> #6,0.69437,0.58146,-0.42398,32.843,0.7143,-0.6284,0.30804,-73.365,-0.087317,-0.51674,-0.85168,428.45
> view matrix models
> #6,0.69437,0.58146,-0.42398,11.005,0.7143,-0.6284,0.30804,-42.131,-0.087317,-0.51674,-0.85168,432.08
> ui mousemode right "rotate selected models"
> view matrix models
> #6,0.35063,0.78557,-0.50984,17.678,0.91819,-0.18118,0.35228,-45.57,0.18437,-0.59165,-0.78483,426.88
> view matrix models
> #6,0.39832,0.90328,-0.15943,-9.5556,0.9055,-0.41496,-0.088726,-11.295,-0.1463,-0.10902,-0.98321,442.3
> view matrix models
> #6,0.59324,0.80492,-0.013205,-20.92,0.765,-0.56877,-0.30212,5.2892,-0.25069,0.16913,-0.95318,439.97
Fit molecule 6rao-assembly1.cif (#6) to map emdb 4783 (#5) using 134454 atoms
average map value = 0.01592, steps = 280
shifted from previous position = 10.8
rotated from previous position = 12.7 degrees
atoms outside contour = 115497, contour level = 0.052592
Position of 6rao-assembly1.cif (#6) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.40731661 0.91251358 0.03757855 -15.93977741
0.87828247 -0.38009074 -0.29008780 10.74022103
-0.25042580 0.15116217 -0.95626195 437.66064711
Axis 0.83564703 0.54542776 -0.06482748
Axis point 0.00000000 -24.43446680 220.64735394
Rotation angle (degrees) 164.69145169
Shift along axis -35.83445007
Opened 6rao-assembly1.cif map 5 as #7, grid size 150,147,176, pixel 1.67,
shown at level 0.101, step 1, values float32
Fit map 6rao-assembly1.cif map 5 in map emdb 4783 using 514934 points
correlation = 0.2916, correlation about mean = 0.008206, overlap = 2953
steps = 116, shift = 1.65, angle = 4.42 degrees
Position of 6rao-assembly1.cif map 5 (#7) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.35267937 0.93335661 0.06680347 -17.35874451
0.91210164 -0.32694491 -0.24734110 8.35670615
-0.20901639 0.14816366 -0.96662282 436.94889918
Axis 0.81944183 0.57146806 -0.04403792
Axis point 0.00000000 -22.32726127 219.85777073
Rotation angle (degrees) 166.03520215
Shift along axis -28.69121089
Average map value = 0.01645 for 134454 atoms, 114876 outside contour
> view matrix models
> #6,0.62967,0.76686,-0.12423,-2.5119,0.6905,-0.62575,-0.36284,17.333,-0.35598,0.14269,-0.92354,433.6
> hide #!1 models
> hide #!5 models
> hide #4 models
> hide #3 models
> show #!5 models
> view matrix models
> #6,0.59893,0.7993,-0.049049,-8.3549,0.80078,-0.59737,0.043556,-14.251,0.0055134,-0.065364,-0.99785,439.38
> view matrix models
> #6,-0.20736,0.95604,-0.20735,3.9483,0.97826,0.20336,-0.040657,-7.7065,0.0032975,-0.21128,-0.97742,437.79
> view matrix models
> #6,-0.084193,0.98746,-0.13357,-1.7859,0.99645,0.083606,-0.010003,-10.089,0.00129,-0.13394,-0.99099,438.84
Fit map 6rao-assembly1.cif map 5 in map emdb 4783 using 514934 points
correlation = 0.7421, correlation about mean = 0.7582, overlap = 1.045e+04
steps = 128, shift = 20.1, angle = 10.1 degrees
Position of 6rao-assembly1.cif map 5 (#7) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.02968872 0.99955919 0.00004777 -0.00750182
0.99955919 -0.02968872 0.00006716 -0.00759602
0.00006855 0.00004576 -0.99999999 426.53305268
Axis -0.71753322 -0.69652428 -0.00004480
Axis point 0.00000000 0.00205978 213.26652664
Rotation angle (degrees) 179.99914537
Shift along axis -0.00843311
Average map value = 0.1102 for 134454 atoms, 26527 outside contour
> show #4 models
> hide #4 models
> show #3 models
> hide #3 models
> show #!2 models
> hide #!2 models
> show #!1 models
> transparency #1.1#5.1 0
> transparency #1.1#5.1 50
> select clear
> hide #!5 models
> ui tool show "Show Sequence Viewer"
> sequence chain #6/J#6/J-2#6/J-3#6/J-4#6/J-5#6/J-6
Alignment identifier is 6/J
> sequence chain #6/J#6/J-2#6/J-3#6/J-4#6/J-5#6/J-6
Destroying pre-existing alignment with identifier 6/J
Alignment identifier is 6/J
> volume #1 level 1.701
> volume #1 level 1.254
> volume #1 level 0.8256
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Alignment identifier is 6/D
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Destroying pre-existing alignment with identifier 6/D
Alignment identifier is 6/D
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Destroying pre-existing alignment with identifier 6/D
Alignment identifier is 6/D
> select #6/D:106
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6/D:66
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #6/D:66
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #6/D:64
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6/D:64-214
830 atoms, 850 bonds, 1 pseudobond, 113 residues, 2 models selected
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Alignment identifier is 6/D
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Destroying pre-existing alignment with identifier 6/D
Alignment identifier is 6/D
> sequence chain #6/D#6/D-2#6/D-3#6/D-4#6/D-5#6/D-6
Destroying pre-existing alignment with identifier 6/D
Alignment identifier is 6/D
> select #6/D-2:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-2:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D-3:4-449
Nothing selected
> select #6/D:7
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6/D:7-12
45 atoms, 46 bonds, 6 residues, 1 model selected
> select #6/D:14
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #6/D:14-67
401 atoms, 411 bonds, 54 residues, 1 model selected
> ui tool show "Show Sequence Viewer"
> sequence chain #6/D #6/D-2 #6/D-3 #6/D-4 #6/D-5 #6/D-6
Alignment identifier is 6/D
> select #6/D:107
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6/D:107
7 atoms, 6 bonds, 1 residue, 1 model selected
> hide #!1 models
> select #6/D:106
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6/D:106-107
14 atoms, 13 bonds, 2 residues, 1 model selected
> select #6/D:14
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #6/D:14-15
17 atoms, 16 bonds, 2 residues, 1 model selected
> select #6/D:265-267
21 atoms, 21 bonds, 3 residues, 1 model selected
> select #6/D:265-317
390 atoms, 397 bonds, 53 residues, 1 model selected
> select #6/D:65
7 atoms, 7 bonds, 1 residue, 1 model selected
> select #6/D:65-173
528 atoms, 540 bonds, 1 pseudobond, 71 residues, 2 models selected
> select
> #6/D:31-34,48-49,127-130,185-188,204-207,211-213,266-268,301-302,322-325,329-332,406-409,429-432,440-442,445-446
388 atoms, 385 bonds, 47 residues, 1 model selected
> select #6/D:4-449
2747 atoms, 2809 bonds, 2 pseudobonds, 358 residues, 2 models selected
> select clear
> select #6/D-3
Nothing selected
> select #6/D
2747 atoms, 2809 bonds, 2 pseudobonds, 358 residues, 2 models selected
> select #6/D-3
Nothing selected
> select #6:/D
Expected an objects specifier or a keyword
> select #6/D-3
Nothing selected
> select #6/D-2
Nothing selected
> hide #!6 models
> show #!6 models
> show #!2 models
> hide #!2 models
> show #!1 models
> show #!5 models
> hide #!5 models
> hide #!6 models
> hide #6.1 models
> show #!6 models
> hide #!1 models
> show #!1 models
> show #!2 models
> show #3 models
> show #4 models
> delete #3-4
> delete #2
> ui tool show "Show Volume Menu"
> show #!5 models
> hide #!5 models
> show #!5 models
> open /Users/bks523/Downloads/6rbn-assembly1.cif
6rbn-assembly1.cif title:
Cryo-EM structure of the anti-feeding prophage (AFP) helical sheath-tube
complex in extended state [more info...]
Chain information for 6rbn-assembly1.cif #3
---
Chain | Description
A A-10 A-11 A-12 A-2 A-3 A-4 A-5 A-6 A-7 A-8 A-9 B B-10 B-11 B-12 B-2 B-3 B-4
B-5 B-6 B-7 B-8 B-9 | Afp1
C C-10 C-11 C-12 C-2 C-3 C-4 C-5 C-6 C-7 C-8 C-9 | Afp2
D D-10 D-11 D-12 D-2 D-3 D-4 D-5 D-6 D-7 D-8 D-9 | Afp3
> show #!7 models
> hide #!6 models
> hide #!5 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> hide #!7 models
> show #!3 models
> show #!5 models
> hide #!3 atoms
> show #!3 cartoons
> ui mousemode right "translate selected models"
> show #!6 models
> select #3
93048 atoms, 95220 bonds, 24 pseudobonds, 12048 residues, 2 models selected
> view matrix models #3,1,0,0,-8.5813,0,1,0,21.271,0,0,1,152.77
> ui tool show "Fit in Map"
Fit molecule 6rbn-assembly1.cif (#3) to map emdb 4783 (#5) using 93048 atoms
average map value = 0.005375, steps = 164
shifted from previous position = 5.7
rotated from previous position = 3.87 degrees
atoms outside contour = 80355, contour level = 0.052592
Position of 6rbn-assembly1.cif (#3) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.99833891 0.05651756 0.01118834 -2.95718580
-0.05687744 0.99776753 0.03499883 23.76482376
-0.00918531 -0.03557706 0.99932472 151.97937369
Axis -0.52236219 0.15079404 -0.83928475
Axis point 695.13291054 1204.26986753 0.00000000
Rotation angle (degrees) 3.87354055
Shift along axis -122.42565525
Average map value = 0.005375 for 93048 atoms, 80355 outside contour
Opened 6rbn-assembly1.cif map 5 as #4, grid size 123,123,142, pixel 1.67,
shown at level 0.104, step 1, values float32
Fit map 6rbn-assembly1.cif map 5 in map emdb 4783 using 355265 points
correlation = 0.09801, correlation about mean = 0.006409, overlap = 634.5
steps = 80, shift = 1.04, angle = 0.975 degrees
Position of 6rbn-assembly1.cif map 5 (#4) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.99737389 0.07129557 0.01273807 -2.92627750
-0.07161414 0.99707762 0.02660147 22.92741766
-0.01080428 -0.02744383 0.99956496 152.79582364
Axis -0.34960227 0.15228812 -0.92443852
Axis point 581.01268905 732.93756237 0.00000000
Rotation angle (degrees) 4.43312263
Shift along axis -136.73573918
Average map value = 0.005236 for 93048 atoms, 80458 outside contour
Fit map 6rbn-assembly1.cif map 5 in map emdb 4783 using 355265 points
correlation = 0.098, correlation about mean = 0.006374, overlap = 634.4
steps = 48, shift = 0.00846, angle = 0.015 degrees
Position of 6rbn-assembly1.cif map 5 (#4) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.99737289 0.07134586 0.01253313 -2.92512382
-0.07165715 0.99707864 0.02644693 22.92736839
-0.01060963 -0.02727554 0.99957165 152.80134521
Axis -0.34770877 0.14978724 -0.92556058
Axis point 576.53130859 729.78787343 0.00000000
Rotation angle (degrees) 4.43063410
Shift along axis -136.97558352
Average map value = 0.005234 for 93048 atoms, 80489 outside contour
> view matrix models
> #3,0.99737,0.071346,0.012533,5.1083,-0.071657,0.99708,0.026447,20,-0.01061,-0.027276,0.99957,160.55
> view matrix models
> #3,0.99737,0.071346,0.012533,-0.31783,-0.071657,0.99708,0.026447,19.842,-0.01061,-0.027276,0.99957,167.82
> hide #!5 models
> show #!5 models
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.99737,0.071346,0.012533,1.5013,-0.071657,0.99708,0.026447,3.4948,-0.01061,-0.027276,0.99957,184.66
> hide #!5 models
> show #!5 models
Fit map 6rbn-assembly1.cif map 5 in map emdb 4783 using 355265 points
correlation = 0.7403, correlation about mean = 0.8462, overlap = 6321
steps = 128, shift = 6.28, angle = 15.7 degrees
Position of 6rbn-assembly1.cif map 5 (#4) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.94149026 0.33704017 0.00014774 0.03233802
-0.33703979 0.94148971 -0.00114081 0.03498155
-0.00052359 0.00102427 0.99999934 190.13374114
Axis 0.00321188 0.00099591 -0.99999435
Axis point 0.96764712 -1.73986226 0.00000000
Rotation angle (degrees) 19.69675184
Shift along axis -190.13252741
Average map value = 0.1002 for 93048 atoms, 19858 outside contour
> show #!2 models
> hide #!2 models
> show #!1 models
> select clear
> hide #!5 models
> show #!2 models
> show #!5 models
> open /Users/bks523/Downloads/6rbn-assembly1.cif
6rbn-assembly1.cif title:
Cryo-EM structure of the anti-feeding prophage (AFP) helical sheath-tube
complex in extended state [more info...]
Chain information for 6rbn-assembly1.cif #8
---
Chain | Description
A A-10 A-11 A-12 A-2 A-3 A-4 A-5 A-6 A-7 A-8 A-9 B B-10 B-11 B-12 B-2 B-3 B-4
B-5 B-6 B-7 B-8 B-9 | Afp1
C C-10 C-11 C-12 C-2 C-3 C-4 C-5 C-6 C-7 C-8 C-9 | Afp2
D D-10 D-11 D-12 D-2 D-3 D-4 D-5 D-6 D-7 D-8 D-9 | Afp3
> hide #!5 models
> show #!5 models
> hide atoms
> show cartoons
> select #8
93048 atoms, 95220 bonds, 24 pseudobonds, 12048 residues, 2 models selected
> view matrix models #8,1,0,0,2.0343,0,1,0,2.2019,0,0,1,24.453
> ui tool show "Fit in Map"
Fit map 6rbn-assembly1.cif map 5 in map emdb 4783 using 355265 points
correlation = 0.7222, correlation about mean = 0.8627, overlap = 6417
steps = 144, shift = 9.04, angle = 20 degrees
Position of 6rbn-assembly1.cif map 5 (#4) relative to emdb 4783 (#5)
coordinates:
Matrix rotation and translation
0.93970255 -0.34199163 0.00091838 0.00757899
0.34199233 0.93970245 -0.00074506 0.04605363
-0.00060820 0.00101421 0.99999930 33.00417647
Axis 0.00257207 0.00223187 0.99999420
Axis point 0.03963612 -0.23304601 0.00000000
Rotation angle (degrees) 19.99840368
Shift along axis 33.00410738
Average map value = 0.1051 for 93048 atoms, 18729 outside contour
> hide #!5 models
> select clear
> save /Users/bks523/Desktop/AFP_All_Align.cxs
——— End of log from Tue May 24 17:12:11 2022 ———
opened ChimeraX session
> select #6/D-4
Nothing selected
> open /Users/bks523/Desktop/Afp13/AFP4/ranked_0.pdb
Chain information for ranked_0.pdb #9
---
Chain | Description
A | No description available
> select #6/E
3005 atoms, 3073 bonds, 2 pseudobonds, 386 residues, 2 models selected
> select #6/E#6/E-2#6/E-3#6/E-4#6/E-5#6/E-6
3005 atoms, 3073 bonds, 2 pseudobonds, 386 residues, 2 models selected
> mmaker #9 to #6/E
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 6rao-assembly1.cif, chain E (#6) with ranked_0.pdb, chain A (#9),
sequence alignment score = 1929.2
RMSD between 331 pruned atom pairs is 0.862 angstroms; (across all 386 pairs:
13.638)
> select #3/D
2747 atoms, 2809 bonds, 2 pseudobonds, 358 residues, 2 models selected
> open /Users/bks523/Desktop/Afp13/AFP3/ranked_0.pdb
Chain information for ranked_0.pdb #10
---
Chain | Description
A | No description available
> mmaker #10 to #6/D
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 6rao-assembly1.cif, chain D (#6) with ranked_0.pdb, chain A (#10),
sequence alignment score = 1942.5
RMSD between 306 pruned atom pairs is 0.780 angstroms; (across all 358 pairs:
16.900)
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> show #6.1 models
> hide #6.1 models
> select #6
134454 atoms, 137460 bonds, 90 pseudobonds, 17280 residues, 2 models selected
> ~select #6
Nothing selected
> select #6
134454 atoms, 137460 bonds, 90 pseudobonds, 17280 residues, 2 models selected
> ~select #6
Nothing selected
> select #6/J-2
Nothing selected
> select #6
134454 atoms, 137460 bonds, 90 pseudobonds, 17280 residues, 2 models selected
> select #6/J-2
Nothing selected
> select #6/J——2
Expected an objects specifier or a keyword
> select #6/J-2
Nothing selected
> open /Users/bks523/Desktop/Afp13/Afp12/ranked_0.pdb
Chain information for ranked_0.pdb #11
---
Chain | Description
A | No description available
> mmaker #11 to #6/J
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 6rao-assembly1.cif, chain J (#6) with ranked_0.pdb, chain A (#11),
sequence alignment score = 3890.7
RMSD between 352 pruned atom pairs is 1.239 angstroms; (across all 548 pairs:
3.054)
> sym #11 C6
> sym #10 C6
> sym #9 C6
> open /Users/bks523/Desktop/Afp13/AFP3/ranked_0.pdb
Chain information for ranked_0.pdb #15
---
Chain | Description
A | No description available
> mmaker #15 to #3/D
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 6rbn-assembly1.cif, chain D (#3) with ranked_0.pdb, chain A (#15),
sequence alignment score = 1956.9
RMSD between 306 pruned atom pairs is 0.780 angstroms; (across all 358 pairs:
16.900)
> sym #15 C6
> select #3/D-5
Nothing selected
> ui mousemode right select
> select #3/D-5:144
Nothing selected
Drag select of 1 cryosparc_P15_J790__localfilter_flipped_formodpot.mrc , 257
residues
> volume sel hide
> open /Users/bks523/Desktop/Afp13/AFP3/ranked_0.pdb
Chain information for ranked_0.pdb #17
---
Chain | Description
A | No description available
> mmaker #17 to sel
Specify a single 'to' model only
> mmaker #17 to #sel
> matchmaker #17 to #sel
Invalid "to" argument: invalid atoms specifier
> ui tool show Matchmaker
> matchmaker #17 to #3/D-5 pairing bs
No 'to' chains specified
> mmaker #17 to #3/D
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 6rbn-assembly1.cif, chain D (#3) with ranked_0.pdb, chain A (#17),
sequence alignment score = 1956.9
RMSD between 306 pruned atom pairs is 0.780 angstroms; (across all 358 pairs:
16.900)
> sym #17 C6
> select #18
20616 atoms, 21048 bonds, 2706 residues, 7 models selected
> show #!1 models
Drag select of 171 residues
> select #18
20616 atoms, 21048 bonds, 2706 residues, 7 models selected
> ui mousemode right "translate selected models"
> view matrix models #18,1,0,0,-18.306,0,1,0,18.326,0,0,1,-89.038
> view matrix models #18,1,0,0,-20.12,0,1,0,23.641,0,0,1,-94.376
> ui tool show "Fit in Map"
Average map value = 0.003585 for 3436 atoms, 2908 outside contour
Opened ranked_0.pdb map 5 as #19, grid size 93,46,65, pixel 1.67, shown at
level 0.093, step 1, values float32
Fit map ranked_0.pdb map 5 in map emdb 4783 using 13295 points
correlation = 0.6364, correlation about mean = 0.5873, overlap = 170.3
steps = 40, shift = 0.144, angle = 0.287 degrees
Position of ranked_0.pdb map 5 (#19) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.26175092 -0.93334939 -0.24565294 49.66105016
-0.91551041 -0.15954940 -0.36930297 -41.20290535
0.30549492 0.32156322 -0.89625329 196.93709491
Axis 0.78156170 -0.62350144 0.02018085
Axis point 0.00000000 -29.94020680 98.04992347
Rotation angle (degrees) 153.76984526
Shift along axis 68.47760329
Average map value = 0.003963 for 3436 atoms, 2897 outside contour
Fit map ranked_0.pdb map 5 in map emdb 4783 using 13295 points
correlation = 0.6376, correlation about mean = 0.5854, overlap = 169.4
steps = 40, shift = 0.155, angle = 0.235 degrees
Position of ranked_0.pdb map 5 (#19) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.92390151 -0.32790918 0.19718409 60.51568849
-0.23074709 -0.88856682 -0.39649060 22.39031033
0.30522414 0.32081861 -0.89661231 196.92293734
Axis 0.98009376 -0.14762028 0.13275720
Axis point 0.00000000 -2.23462986 97.70061619
Rotation angle (degrees) 158.53461365
Shift along axis 82.14872314
Average map value = 0.008205 for 3436 atoms, 2914 outside contour
Fit map ranked_0.pdb map 5 in map emdb 4783 using 13295 points
correlation = 0.6366, correlation about mean = 0.5844, overlap = 169.2
steps = 40, shift = 0.153, angle = 0.27 degrees
Position of ranked_0.pdb map 5 (#19) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
0.66165551 0.60514836 0.44272729 10.86619540
0.68501665 -0.72796058 -0.02873303 63.61000079
0.30490027 0.32228693 -0.89619583 196.93567785
Axis 0.91061891 0.35755201 0.20719500
Axis point 0.00000000 19.96529894 99.22668409
Rotation angle (degrees) 168.88744299
Shift along axis 73.44293337
Average map value = -0.005838 for 3436 atoms, 3350 outside contour
Fit map ranked_0.pdb map 5 in map emdb 4783 using 13295 points
correlation = 0.6355, correlation about mean = 0.5865, overlap = 169.9
steps = 40, shift = 0.146, angle = 0.289 degrees
Position of ranked_0.pdb map 5 (#19) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
-0.26167674 0.93338702 0.24558900 -49.65827168
0.91551572 0.15949419 0.36931364 41.20250382
0.30554253 0.32148139 -0.89626641 196.93636075
Axis -0.60738531 -0.76130419 -0.22693392
Axis point -43.67797213 0.00000000 91.32429259
Rotation angle (degrees) 177.74336433
Shift along axis -45.89747474
Average map value = -0.001998 for 3436 atoms, 3301 outside contour
Fit map ranked_0.pdb map 5 in map emdb 4783 using 13295 points
correlation = 0.6341, correlation about mean = 0.5887, overlap = 170.3
steps = 40, shift = 0.142, angle = 0.268 degrees
Position of ranked_0.pdb map 5 (#19) relative to emdb 4783 (#5) coordinates:
Matrix rotation and translation
-0.66143535 -0.60526122 -0.44290196 -10.85653413
-0.68522378 0.72776400 0.02877365 -63.61920998
0.30491253 0.32251886 -0.89610821 196.94190836
Axis 0.36381287 -0.92619222 -0.09903621
Axis point -40.73737273 0.00000000 99.16804085
Rotation angle (degrees) 156.19007907
Shift along axis 35.46949121
Average map value = 0.004413 for 3436 atoms, 2928 outside contour
> ~select #18
Nothing selected
> hide #!18 models
> show #!18 models
> hide #!18 models
> hide #18.1 models
> hide #18.2 models
> hide #18.3 models
> hide #18.4 models
> hide #18.5 models
> hide #18.6 models
> show #!18 models
> hide #!18 models
> show #18.1 models
> show #18.2 models
> show #18.3 models
> show #18.4 models
> show #18.5 models
> show #18.6 models
> ui mousemode right select
> select #18
20616 atoms, 21048 bonds, 2706 residues, 7 models selected
Drag select of 190 residues
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.94149,0.33704,0.00014774,1.3926,-0.33704,0.94149,-0.0011408,-12.894,-0.00052359,0.0010243,1,192.82,#18.1,0.26175,-0.93335,-0.24565,51.014,-0.91551,-0.15955,-0.3693,-54.315,0.30549,0.32156,-0.89625,199.58,#18.6,-0.66144,-0.60526,-0.4429,-9.7208,-0.68522,0.72776,0.028774,-76.421,0.30491,0.32252,-0.89611,199.71
> undo
> select #18
20616 atoms, 21048 bonds, 2706 residues, 7 models selected
> view matrix models #18,1,0,0,-28.693,0,1,0,10.023,0,0,1,-94.881
> view matrix models #18,1,0,0,-30.704,0,1,0,4.7862,0,0,1,-94.903
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.92828,-0.3715,0.017042,-33.813,0.37166,0.92513,-0.077484,19.629,0.013019,0.078261,0.99685,-94.365
> select #6/J-2
Nothing selected
> select #3/A-4
Nothing selected
OpenGL version: 4.1 Metal - 76.3
OpenGL renderer: Apple M1 Max
OpenGL vendor: AppleHardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,4
Processor Name: Unknown
Processor Speed: 2,4 GHz
Number of Processors: 1
Total Number of Cores: 10
L2 Cache: 20 MB
Memory: 32 GB
Software:
System Software Overview:
System Version: macOS 12.4 (21F79)
Kernel Version: Darwin 21.5.0
Time since boot: 5 days 43 minutes
Graphics/Displays:
Apple M1 Max:
Chipset Model: Apple M1 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 32
Vendor: Apple (0x106b)
Metal Family: Supported, Metal GPUFamily Apple 7
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.5.30
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.0
ParmEd: 3.2.0
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Command Line |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → PDB assembly chain IDs |
comment:2 by , 3 years ago
| Resolution: | → fixed |
|---|---|
| Status: | accepted → closed |
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Hi Yumeng,
--Eric